Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005527.1 Hibiscus syriacus cultivar Beakdansim tig00012771_pilon, whole genome shotgun sequence
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: 90984
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Found at i:1699 original size:26 final size:25
Alignment explanation
Indices: 1670--1727 Score: 80
Period size: 26 Copynumber: 2.3 Consensus size: 25
1660 CATCGTCGTT
*
1670 CGTCGTAGAAAACTCGTTGAAAACCC
1 CGTCGTAGAAAACTCGTCG-AAACCC
*
1696 CGTCGTAGAAAGCTCGTCGAAACCC
1 CGTCGTAGAAAACTCGTCGAAACCC
*
1721 CGCCGTA
1 CGTCGTA
1728 AGATTTTCCT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 12 0.41
26 17 0.59
ACGTcount: A:0.29, C:0.31, G:0.22, T:0.17
Consensus pattern (25 bp):
CGTCGTAGAAAACTCGTCGAAACCC
Found at i:21592 original size:17 final size:19
Alignment explanation
Indices: 21566--21613 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 19
21556 ACAAAATAAA
21566 AAATAAAATAAAAAAATATT
1 AAAT-AAATAAAAAAATATT
21586 -AAT-AAT-AAAAAATATT
1 AAATAAATAAAAAAATATT
21602 AAATAAATAAAA
1 AAATAAATAAAA
21614 GGTTAAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
16 10 0.40
17 6 0.24
18 3 0.12
19 6 0.24
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (19 bp):
AAATAAATAAAAAAATATT
Found at i:21597 original size:16 final size:16
Alignment explanation
Indices: 21560--21613 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
21550 GATAAAACAA
*
21560 AATAAAAAATA-AAAT
1 AATAAAAAATATTAAT
21575 -A-AAAAAATATTAAT
1 AATAAAAAATATTAAT
21589 AATAAAAAATATTAAAT
1 AATAAAAAATATT-AAT
21606 AAATAAAA
1 -AATAAAA
21614 GGTTAAAAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
13 8 0.24
14 4 0.12
15 1 0.03
16 10 0.30
17 3 0.09
18 7 0.21
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AATAAAAAATATTAAT
Found at i:24940 original size:55 final size:55
Alignment explanation
Indices: 24877--25246 Score: 580
Period size: 55 Copynumber: 6.7 Consensus size: 55
24867 AACATGTTCA
24877 CTCCCTATTCCTTCAGAGAGTATGAGACTCGAACAATCTTCAATAATCGTGTCTG
1 CTCCCTATTCCTTCAGAGAGTATGAGACTCGAACAATCTTCAATAATCGTGTCTG
* * * * *
24932 CTCCCTATTTCTTTAGTGAGTATAAGACTCGAACAATCTTCAATAATAGTGTCTG
1 CTCCCTATTCCTTCAGAGAGTATGAGACTCGAACAATCTTCAATAATCGTGTCTG
* *
24987 CTCCCTATTCTTTCAGAGAGTATGAGACTCGAACAATCTTCAATAATTGTGTCTG
1 CTCCCTATTCCTTCAGAGAGTATGAGACTCGAACAATCTTCAATAATCGTGTCTG
* *
25042 TTCCCTATTCCTTCAGAGAGTATGAGACTCGAACAATCTTCAATAATCGTTTCTG
1 CTCCCTATTCCTTCAGAGAGTATGAGACTCGAACAATCTTCAATAATCGTGTCTG
* * *
25097 TTCCCTATTCTTTCAGAGAGTATGAGACTCGAACAATCTTCAATAATTGTGTCTG
1 CTCCCTATTCCTTCAGAGAGTATGAGACTCGAACAATCTTCAATAATCGTGTCTG
* *
25152 ATCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAATAATCGTGTCTG
1 CTCCCTATTCCTTCAGAGAGTATGAGACTCGAACAATCTTCAATAATCGTGTCTG
* * *
25207 TTCCCTATTCTTTTAGAGAGTATGAGACTCGAAC-ATCTTC
1 CTCCCTATTCCTTCAGAGAGTATGAGACTCGAACAATCTTC
25247 TTCTTACGGG
Statistics
Matches: 289, Mismatches: 26, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
54 6 0.02
55 283 0.98
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.35
Consensus pattern (55 bp):
CTCCCTATTCCTTCAGAGAGTATGAGACTCGAACAATCTTCAATAATCGTGTCTG
Found at i:25266 original size:54 final size:55
Alignment explanation
Indices: 24872--26145 Score: 483
Period size: 54 Copynumber: 23.9 Consensus size: 55
24862 CGGAAAACAT
* * * *
24872 GTTCACTCCCTATTCCTTCAGAGAGTATGAGACTCGAACAATCTTC-AATAATCGT
1 GTTCGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCTTATAA-CGG
* * * * **
24927 G-TCTGCTCCCTATTTCTTTAGTGAGTATAAGACTCGAACAATCTTC-AATAA-TA
1 GTTC-GCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCTTATAACGG
* **
24980 GTGTCTGCTCCCTA-TTCTTTCAGAGAGTATGAGACTCGAACAATCTTC-AATAA-TT
1 GT-TC-GCTCCCTATTTC-TTCAGAGAGTATGAGACTCGAACAATCTTCTTATAACGG
* * *
25035 GTGTCTGTTCCCTATTCCTTCAGAGAGTATGAGACTCGAACAATCTTC-AATAATC-G
1 GT-TC-GCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCTTATAA-CGG
* * * **
25091 TTTCTGTTCCCTA-TTCTTTCAGAGAGTATGAGACTCGAACAATCTTC-AATAA-TT
1 GTTC-GCTCCCTATTTC-TTCAGAGAGTATGAGACTCGAACAATCTTCTTATAACGG
* * *
25145 GTGTCTGATCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTC-AATAATCGT
1 GT-TC-GCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCTTATAA-CGG
* * * *
25202 G-TCTGTTCCCTA-TTCTTTTAGAGAGTATGAGACTCGAAC-ATCTTCTTCTTACGG
1 GTTC-GCTCCCTATTTC-TTCAGAGAGTATGAGACTCGAACAATCTTCTTATAACGG
* * * * *
25256 GTTCGCTCCCTCTTTCTTCAG-GAAGTAT-AGAACTC-AAAAAT-TGTCTTCTTACAG
1 GTTCGCTCCCTATTTCTTCAGAG-AGTATGAG-ACTCGAACAATCT-TCTTATAACGG
* *
25310 GTTCGCTCCCTCTTTCTTCAG-GAAGTAT-AGAACTCGAAC-ATCTTTTTCA-AACGG
1 GTTCGCTCCCTATTTCTTCAGAG-AGTATGAG-ACTCGAACAATCTTCTT-ATAACGG
* * * *
25364 GTTCGCTCCCTTTTTC-TCTAGGGAGTATG-GAATTCGGAC-ATCTTCTTCA-AACGG
1 GTTCGCTCCCTATTTCTTC-AGAGAGTATGAG-ACTCGAACAATCTTCTT-ATAACGG
* * * * *
25418 GTTCGCTCCCTCTTTC-TCTAGGGAGTATG-GAACTCAAAC-ATCTTCTTCA-AATGA
1 GTTCGCTCCCTATTTCTTC-AGAGAGTATGAG-ACTCGAACAATCTTCTT-ATAACGG
* * *
25472 GTTTGCTCCCTCTTTCTTCAG-GAAGTAT-AGAACTCGGAC-ATCTTCTTCA-AACGG
1 GTTCGCTCCCTATTTCTTCAGAG-AGTATGAG-ACTCGAACAATCTTCTT-ATAACGG
* * * *
25526 GTTCGCTCCCTCTTTCTTCAG-GAAGTAT-AGAACTCCAATAA-CTTC--A-CACGG
1 GTTCGCTCCCTATTTCTTCAGAG-AGTATGAG-ACTCGAACAATCTTCTTATAACGG
* * * * *
25577 GTTCACTCCCTCTTTC-TCTAGGGAGTATG-GAACTCGGAC-ATC-T-TTA-AAAGG
1 GTTCGCTCCCTATTTCTTC-AGAGAGTATGAG-ACTCGAACAATCTTCTTATAACGG
* * * * *
25628 GTTCACTCCCTCTTTC-TCTAGGGAGTAT-AGAACTCGGAC-ATCTTCTTCA-AATGG
1 GTTCGCTCCCTATTTCTTC-AGAGAGTATGAG-ACTCGAACAATCTTCTT-ATAACGG
* * * * *
25682 GTTCGCTCCCTCTTTCTTCA-AGAAGTAT-AGAACTCCAATAA-CTTC--A-CACGA
1 GTTCGCTCCCTATTTCTTCAGAG-AGTATGAG-ACTCGAACAATCTTCTTATAACGG
* * * *
25733 GTTCGCTCCCTCTTTC-TCTAGGGAGTATG-GAACTCGGAC-ATCTAC--A-AACGG
1 GTTCGCTCCCTATTTCTTC-AGAGAGTATGAG-ACTCGAACAATCTTCTTATAACGG
* * *
25784 GTTCGCTCCCTCTTTCCTCAGGGAGTATG-GAACTCGAAC-ATCTTCTTCA-AACGG
1 GTTCGCTCCCTATTTCTTCAGAGAGTATGAG-ACTCGAACAATCTTCTT-ATAACGG
*
25838 GTTCGCTCCCTCTTTCTTCAG-GAAGTAT-AGAACTC-AGAC-ATCTTCTTCA-AACGG
1 GTTCGCTCCCTATTTCTTCAGAG-AGTATGAG-ACTCGA-ACAATCTTCTT-ATAACGG
* * * * **
25892 GTTCCCTCCCTCTTTCTTCATGA-AGTAT-AGAACTCCAATAA-C-T-TT-GCACGG
1 GTTCGCTCCCTATTTCTTCA-GAGAGTATGAG-ACTCGAACAATCTTCTTATAACGG
* * *
25943 GTTCGCTCCCTCTTTC-TCTAGGGAGTATG-GAACTCGGAC-ATCTTC--A-AACGG
1 GTTCGCTCCCTATTTCTTC-AGAGAGTATGAG-ACTCGAACAATCTTCTTATAACGG
* * * * * *
25994 GTTCACTCTCTCTTTC-TCTAGGGAGTAT-AGAACTCGGAC-ATCTTCTTCA-AACAG
1 GTTCGCTCCCTATTTCTTC-AGAGAGTATGAG-ACTCGAACAATCTTCTT-ATAACGG
* * * * *
26048 GTTCACTCCCTCTTTCTTCAG-GAAGTAT-AGAACTCCAATAA-CTTC--A-CACGG
1 GTTCGCTCCCTATTTCTTCAGAG-AGTATGAG-ACTCGAACAATCTTCTTATAACGG
* *
26099 GTTCGCTCCCTCTTTC-TCTAGGGAGTATG-GAACTCGAAC-ATCTTCTT
1 GTTCGCTCCCTATTTCTTC-AGAGAGTATGAG-ACTCGAACAATCTTCTT
26146 CCGCTTCACT
Statistics
Matches: 1037, Mismatches: 102, Indels: 162
0.80 0.08 0.12
Matches are distributed among these distances:
50 14 0.01
51 276 0.27
52 9 0.01
53 17 0.02
54 432 0.42
55 281 0.27
56 6 0.01
57 2 0.00
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (55 bp):
GTTCGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCTTATAACGG
Found at i:25694 original size:156 final size:160
Alignment explanation
Indices: 25225--26146 Score: 970
Period size: 156 Copynumber: 5.8 Consensus size: 160
25215 TCTTTTAGAG
* ** * * *
25225 AGTAT-GAGACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCT-TCAGGAAGTATAGAA
1 AGTATAGA-ACTCGGACATCTTCTTCAAACGGGTTCACTCCCTCTTTCTCT-AGGGAGTATGGAA
* * * * *
25288 CTCAAAAATTGTCTTCT-TACAGGTTCGCTCCCTCTTTCT-TCAGGAAGTATAGAACTCGAACAT
64 CTCCAACA---TCTT-TAAACGGGTTCGCTCCCTCTTTCTCTCAGGGAGTATAGAACTCGAACAT
* * *
25351 CTTTTTCAAACGGGTTCGCTCCCTTTTTC-TCTAGGG
125 CTTCTTCAAACGGGTTCGCTCCCTCTTTCTTC-AGGA
* * *
25387 AGTATGGAATTCGGACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACT
1 AGTATAGAACTCGGACATCTTCTTCAAACGGGTTCACTCCCTCTTTCTCTAGGGAGTATGGAACT
* * * * * *
25452 CAAACATCTTCTTCAAATGAGTTTGCTCCCTCTTTCT-TCAGGAAGTATAGAACTCGGACATCTT
66 CCAACATC-T-TT-AAACGGGTTCGCTCCCTCTTTCTCTCAGGGAGTATAGAACTCGAACATCTT
25516 CTTCAAACGGGTTCGCTCCCTCTTTCTTCAGGA
128 CTTCAAACGGGTTCGCTCCCTCTTTCTTCAGGA
* ** *
25549 AGTATAGAACTC-CA-AT-AACTTCACACGGGTTCACTCCCTCTTTCTCTAGGGAGTATGGAACT
1 AGTATAGAACTCGGACATCTTCTTCAAACGGGTTCACTCCCTCTTTCTCTAGGGAGTATGGAACT
** * * *
25611 CGGACATCTTTAAAAGGGTTCACTCCCTCTTTCTCT-AGGGAGTATAGAACTCGGACATCTTCTT
66 CCAACATCTTTAAACGGGTTCGCTCCCTCTTTCTCTCAGGGAGTATAGAACTCGAACATCTTCTT
* *
25675 CAAATGGGTTCGCTCCCTCTTTCTTCAAGA
131 CAAACGGGTTCGCTCCCTCTTTCTTCAGGA
* ** * * *
25705 AGTATAGAACTC-CA-AT-AACTTCACACGAGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACT
1 AGTATAGAACTCGGACATCTTCTTCAAACGGGTTCACTCCCTCTTTCTCTAGGGAGTATGGAACT
** ** *
25767 CGGACATCTACAAACGGGTTCGCTCCCTCTTTC-CTCAGGGAGTATGGAACTCGAACATCTTCTT
66 CCAACATCTTTAAACGGGTTCGCTCCCTCTTTCTCTCAGGGAGTATAGAACTCGAACATCTTCTT
25831 CAAACGGGTTCGCTCCCTCTTTCTTCAGGA
131 CAAACGGGTTCGCTCCCTCTTTCTTCAGGA
* * * * *
25861 AGTATAGAACTCAGACATCTTCTTCAAACGGGTTCCCTCCCTCTTTCT-TCATGAAGTATAGAAC
1 AGTATAGAACTCGGACATCTTCTTCAAACGGGTTCACTCCCTCTTTCTCT-AGGGAGTATGGAAC
* * ** * *
25925 TCCAATAACTTTGCACGGGTTCGCTCCCTCTTTCTCT-AGGGAGTATGGAACTCGGACA---TCT
65 TCCAACATCTTTAAACGGGTTCGCTCCCTCTTTCTCTCAGGGAGTATAGAACTCGAACATCTTCT
* * *
25986 TCAAACGGGTTCACTCTCTCTTTC-TCTAGGG
130 TCAAACGGGTTCGCTCCCTCTTTCTTC-AGGA
* * *
26017 AGTATAGAACTCGGACATCTTCTTCAAACAGGTTCACTCCCTCTTTCT-TCAGGAAGTATAGAAC
1 AGTATAGAACTCGGACATCTTCTTCAAACGGGTTCACTCCCTCTTTCTCT-AGGGAGTATGGAAC
* * * * *
26081 TCCAATAACTTCACACGGGTTCGCTCCCTCTTTCTCT-AGGGAGTATGGAACTCGAACATCTTCT
65 TCCAACATCTTTAAACGGGTTCGCTCCCTCTTTCTCTCAGGGAGTATAGAACTCGAACATCTTCT
26145 TC
130 TC
26147 CGCTTCACTA
Statistics
Matches: 672, Mismatches: 70, Indels: 39
0.86 0.09 0.05
Matches are distributed among these distances:
155 4 0.01
156 372 0.55
157 4 0.01
158 4 0.01
159 136 0.20
160 6 0.01
161 2 0.00
162 139 0.21
163 5 0.01
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (160 bp):
AGTATAGAACTCGGACATCTTCTTCAAACGGGTTCACTCCCTCTTTCTCTAGGGAGTATGGAACT
CCAACATCTTTAAACGGGTTCGCTCCCTCTTTCTCTCAGGGAGTATAGAACTCGAACATCTTCTT
CAAACGGGTTCGCTCCCTCTTTCTTCAGGA
Found at i:25944 original size:366 final size:366
Alignment explanation
Indices: 25254--26141 Score: 1377
Period size: 366 Copynumber: 2.4 Consensus size: 366
25244 TTCTTCTTAC
* * ** * **
25254 GGGTTCGCTCCCTCTTTCT-TCAGGAAGTATAGAACTCAAAAAT-TGTCTTCTTACAGGTTCGCT
1 GGGTTCACTCCCTCTTTCTCT-AGGGAGTATAGAACTCGGACATCT-TCTTCAAACAGGTTCGCT
* * * * *
25317 CCCTCTTTCTTCAGGAAGTATAGAACTCGAACATCTTTTTCAAACGGGTTCGCTCCCTTTTTCTC
64 CCCTCTTTCTTCAGGAAGTATAGAACTCCAATAAC---TTCACACGGGTTCGCTCCCTCTTTCTC
* *
25382 TAGGGAGTATGGAATTCGGACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATG
126 TAGGGAGTATGGAACTCGGACA---TCTACAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATG
* * *
25447 GAACTCAAACATCTTCTTCAAATGAGTTTGCTCCCTCTTTCTTCAGGAAGTATAGAACTCGGACA
188 GAACTCAAACATCTTCTTCAAACGAGTTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTCAGACA
*
25512 TCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTCCAATAACTTCACACGG
253 TCTTCTTCAAACGGGTTCCCTCCCTCTTTCTTCAGGAAGTATAGAACTCCAATAACTTCACACGG
*
25577 GTTCACTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTTAAAA
318 GTTCACTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCAAAA
**
25626 GGGTTCACTCCCTCTTTCTCTAGGGAGTATAGAACTCGGACATCTTCTTCAAATGGGTTCGCTCC
1 GGGTTCACTCCCTCTTTCTCTAGGGAGTATAGAACTCGGACATCTTCTTCAAACAGGTTCGCTCC
* *
25691 CTCTTTCTTCAAGAAGTATAGAACTCCAATAACTTCACACGAGTTCGCTCCCTCTTTCTCTAGGG
66 CTCTTTCTTCAGGAAGTATAGAACTCCAATAACTTCACACGGGTTCGCTCCCTCTTTCTCTAGGG
*
25756 AGTATGGAACTCGGACATCTACAAACGGGTTCGCTCCCTCTTTC-CTCAGGGAGTATGGAACTCG
131 AGTATGGAACTCGGACATCTACAAACGGGTTCGCTCCCTCTTTCTCT-AGGGAGTATGGAACTCA
*
25820 AACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTCAGACATCTTCTT
195 AACATCTTCTTCAAACGAGTTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTCAGACATCTTCTT
* ** *
25885 CAAACGGGTTCCCTCCCTCTTTCTTCATGAAGTATAGAACTCCAATAACTTTGCACGGGTTCGCT
260 CAAACGGGTTCCCTCCCTCTTTCTTCAGGAAGTATAGAACTCCAATAACTTCACACGGGTTCACT
*
25950 CCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCAAAC
325 CCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCAAAA
* *
25992 GGGTTCACTCTCTCTTTCTCTAGGGAGTATAGAACTCGGACATCTTCTTCAAACAGGTTCACTCC
1 GGGTTCACTCCCTCTTTCTCTAGGGAGTATAGAACTCGGACATCTTCTTCAAACAGGTTCGCTCC
26057 CTCTTTCTTCAGGAAGTATAGAACTCCAATAACTTCACACGGGTTCGCTCCCTCTTTCTCTAGGG
66 CTCTTTCTTCAGGAAGTATAGAACTCCAATAACTTCACACGGGTTCGCTCCCTCTTTCTCTAGGG
*
26122 AGTATGGAACTCGAACATCT
131 AGTATGGAACTCGGACATCT
26142 TCTTCCGCTT
Statistics
Matches: 476, Mismatches: 37, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
365 2 0.00
366 346 0.73
369 45 0.09
372 81 0.17
373 2 0.00
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (366 bp):
GGGTTCACTCCCTCTTTCTCTAGGGAGTATAGAACTCGGACATCTTCTTCAAACAGGTTCGCTCC
CTCTTTCTTCAGGAAGTATAGAACTCCAATAACTTCACACGGGTTCGCTCCCTCTTTCTCTAGGG
AGTATGGAACTCGGACATCTACAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCAA
ACATCTTCTTCAAACGAGTTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTCAGACATCTTCTTC
AAACGGGTTCCCTCCCTCTTTCTTCAGGAAGTATAGAACTCCAATAACTTCACACGGGTTCACTC
CCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCAAAA
Found at i:27454 original size:10 final size:9
Alignment explanation
Indices: 27432--27483 Score: 61
Period size: 9 Copynumber: 5.6 Consensus size: 9
27422 TGAACCCTCA
27432 TTTTCTTTT-
1 TTTT-TTTTC
27441 TTTTTTGTTC
1 TTTTTT-TTC
27451 TTTTTTGTTC
1 TTTTTT-TTC
*
27461 ATTTTTTTC
1 TTTTTTTTC
27470 TTTTTTTTC
1 TTTTTTTTC
27479 TTTTT
1 TTTTT
27484 CATTTTTTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
8 2 0.05
9 22 0.56
10 15 0.38
ACGTcount: A:0.02, C:0.10, G:0.04, T:0.85
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:38490 original size:21 final size:21
Alignment explanation
Indices: 38448--38490 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
38438 TTTCTGGGTT
* * *
38448 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
38469 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
38490 A
1 A
38491 CGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:38557 original size:67 final size:67
Alignment explanation
Indices: 38470--38621 Score: 225
Period size: 67 Copynumber: 2.3 Consensus size: 67
38460 ACCCATTCAA
* * *
38470 GGGGAACCGATACCCCCTCAACGAATATGAATTTTCAGAATACTAGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATACTAGAGGGGAACCGATA-CCCCA
38535 -GG
65 GGG
* *
38537 GGGGAACCGATACCCCCTCAACGGATATGAAATTCCAGAATGCTAGAGGGGAACCGATACCCCAG
1 GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATACTAGAGGGGAACCGATACCCCA-
38602 GGG
65 GGG
*
38605 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
38622 ATGAGAAAAA
Statistics
Matches: 77, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
66 5 0.06
67 54 0.70
68 18 0.23
ACGTcount: A:0.30, C:0.28, G:0.27, T:0.15
Consensus pattern (67 bp):
GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATACTAGAGGGGAACCGATACCCCAG
GG
Found at i:39276 original size:23 final size:23
Alignment explanation
Indices: 39232--39276 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
39222 ATCATTATAT
*
39232 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
39255 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
39277 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:41650 original size:87 final size:87
Alignment explanation
Indices: 41504--41674 Score: 324
Period size: 87 Copynumber: 2.0 Consensus size: 87
41494 GCTTGGTGTA
41504 GTGTATATCTTCCATGCATGCACGATAATCACTAGATTTACAAGAGTTTCATGAGAGTTATTCGA
1 GTGTATATCTTCCATGCATGCACGATAATCACTAGATTTACAAGAGTTTCATGAGAGTTATTCGA
41569 CATGTTAATAACTCTTCTTGAT
66 CATGTTAATAACTCTTCTTGAT
* *
41591 GTGTATATCTTCCATGTATGCACGATAATCACTAGATTTACAAGAGTTTCATGAGAGTTATTCGG
1 GTGTATATCTTCCATGCATGCACGATAATCACTAGATTTACAAGAGTTTCATGAGAGTTATTCGA
41656 CATGTTAATAACTCTTCTT
66 CATGTTAATAACTCTTCTT
41675 TTCCATCAAG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 82 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.37
Consensus pattern (87 bp):
GTGTATATCTTCCATGCATGCACGATAATCACTAGATTTACAAGAGTTTCATGAGAGTTATTCGA
CATGTTAATAACTCTTCTTGAT
Found at i:41776 original size:10 final size:11
Alignment explanation
Indices: 41761--41807 Score: 60
Period size: 11 Copynumber: 4.1 Consensus size: 11
41751 CTACAAAGAC
41761 ATTATATTA-T
1 ATTATATTATT
41771 ATTATAATTATT
1 ATTAT-ATTATT
41783 ATTAATTATTATT
1 ATT-A-TATTATT
41796 ATTATATTATT
1 ATTATATTATT
41807 A
1 A
41808 ATAATATTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
10 5 0.15
11 12 0.36
12 5 0.15
13 10 0.30
14 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
ATTATATTATT
Found at i:41785 original size:3 final size:3
Alignment explanation
Indices: 41761--41829 Score: 56
Period size: 3 Copynumber: 23.7 Consensus size: 3
41751 CTACAAAGAC
*
41761 ATT A-T ATT A-T ATT ATA ATT ATT ATT AATT ATT ATT ATT A-T ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT
* * *
41804 ATT AAT AAT ATT AATT -TT ATT TTT AT
1 ATT ATT ATT ATT -ATT ATT ATT ATT AT
41830 AGCCCCATGT
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
2 8 0.15
3 40 0.74
4 6 0.11
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:41790 original size:16 final size:17
Alignment explanation
Indices: 41761--41800 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
41751 CTACAAAGAC
41761 ATTA-TATTATATTATA
1 ATTATTATTATATTATA
*
41777 ATTATTATTA-ATTATT
1 ATTATTATTATATTATA
41793 ATTATTAT
1 ATTATTAT
41801 ATTATTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTATTATTATATTATA
Found at i:41793 original size:24 final size:23
Alignment explanation
Indices: 41764--41816 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 23
41754 CAAAGACATT
*
41764 ATATTA-TATTATAATTATTATTA
1 ATATTATTATTAT-ATTATTAATA
41787 ATTATTATTATTATATTATTAATA
1 A-TATTATTATTATATTATTAATA
41811 ATATTA
1 ATATTA
41817 ATTTTATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 6 0.22
24 15 0.56
25 6 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
ATATTATTATTATATTATTAATA
Found at i:41800 original size:30 final size:30
Alignment explanation
Indices: 41761--41830 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
41751 CTACAAAGAC
*
41761 ATTA-TATTATATTA-TAATTATTATTAATT
1 ATTATTATTATATTATTAA-TAATATTAATT
41790 ATTATTATTATATTATTAATAATATTAATT
1 ATTATTATTATATTATTAATAATATTAATT
*
41820 -TTATTTTTATA
1 ATTATTATTATA
41831 GCCCCATGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
29 14 0.38
30 20 0.54
31 3 0.08
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (30 bp):
ATTATTATTATATTATTAATAATATTAATT
Found at i:47369 original size:29 final size:29
Alignment explanation
Indices: 47326--47408 Score: 148
Period size: 29 Copynumber: 2.8 Consensus size: 29
47316 CTCACCTAAC
47326 TAAATTGATGTAAGCAATGACATCATTACT
1 TAAA-TGATGTAAGCAATGACATCATTACT
*
47356 TAAATGATGTAAGCAATGACATCTTTACT
1 TAAATGATGTAAGCAATGACATCATTACT
47385 TAAATGATGTAAGCAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
47409 ATTTAGTTTG
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 47 0.92
30 4 0.08
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.31
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTACT
Found at i:50742 original size:15 final size:15
Alignment explanation
Indices: 50722--50751 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
50712 CTTTCTTATA
50722 GTTGTTGTTGTAATT
1 GTTGTTGTTGTAATT
50737 GTTGTTGTTGTAATT
1 GTTGTTGTTGTAATT
50752 CCAGCCTCGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.00, G:0.27, T:0.60
Consensus pattern (15 bp):
GTTGTTGTTGTAATT
Found at i:50806 original size:24 final size:24
Alignment explanation
Indices: 50751--50806 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
50741 TTGTTGTAAT
*
50751 TCCAGCCTCGTCCACGACCTCGACT
1 TCCA-CCTCGTCCACGACCTCGACC
* *
50776 TCCACCTCGTCCATGACCTCTACC
1 TCCACCTCGTCCACGACCTCGACC
*
50800 TCTACCT
1 TCCACCT
50807 TGGCCACGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.16, C:0.48, G:0.11, T:0.25
Consensus pattern (24 bp):
TCCACCTCGTCCACGACCTCGACC
Found at i:52071 original size:29 final size:29
Alignment explanation
Indices: 52028--52109 Score: 155
Period size: 29 Copynumber: 2.8 Consensus size: 29
52018 CTCACCTAAC
52028 TAAATTGATGTAAGCAATGACATCTTTACT
1 TAAA-TGATGTAAGCAATGACATCTTTACT
52058 TAAATGATGTAAGCAATGACATCTTTACT
1 TAAATGATGTAAGCAATGACATCTTTACT
52087 TAAATGATGTAAGCAATGACATC
1 TAAATGATGTAAGCAATGACATC
52110 AATTTAGTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
29 48 0.92
30 4 0.08
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCTTTACT
Found at i:52901 original size:9 final size:9
Alignment explanation
Indices: 52887--52912 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
52877 TAAGATACAG
52887 TTGAAAGAA
1 TTGAAAGAA
52896 TTGAAAGAA
1 TTGAAAGAA
52905 TTGAAAGA
1 TTGAAAGA
52913 GAAAACACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (9 bp):
TTGAAAGAA
Found at i:57676 original size:29 final size:29
Alignment explanation
Indices: 57582--57749 Score: 130
Period size: 29 Copynumber: 5.8 Consensus size: 29
57572 ATATTATCAT
* * * *
57582 AATAAAATATAAATATTTAAGTTAAGATAAA
1 AATAAAATAT--ATTTTTAATTTAAAATAAG
* **
57613 AATAAATTATATTTTTAATTTATTATAAG
1 AATAAAATATATTTTTAATTTAAAATAAG
* * *
57642 ATTAAAATATATTTTTAAATTAAAATGAG
1 AATAAAATATATTTTTAATTTAAAATAAG
*
57671 AATAAAATATA-TTTTAGTTTACAAA-AAG
1 AATAAAATATATTTTTAATTTA-AAATAAG
* * *
57699 AATAAAATATATTTAATAAGTTAAGATAA-
1 AATAAAATATATTT-TTAATTTAAAATAAG
57728 AA-AAAATAT-TTTTTAATGTTAA
1 AATAAAATATATTTTTAAT-TTAA
57750 GATGTAAAAT
Statistics
Matches: 110, Mismatches: 22, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
26 3 0.03
27 7 0.06
28 28 0.25
29 56 0.51
30 7 0.06
31 9 0.08
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.40
Consensus pattern (29 bp):
AATAAAATATATTTTTAATTTAAAATAAG
Found at i:57732 original size:27 final size:28
Alignment explanation
Indices: 57702--57769 Score: 70
Period size: 27 Copynumber: 2.5 Consensus size: 28
57692 CAAAAAGAAT
57702 AAAATATATTTAATAA-GTTAAGATAAA
1 AAAATATATTTAATAATGTTAAGATAAA
** **
57729 AAAA-ATATTTTTTAATGTTAAGATGTA
1 AAAATATATTTAATAATGTTAAGATAAA
*
57756 AAATTA-ATTTAATA
1 AAAATATATTTAATA
57770 TGTGAATTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
26 9 0.28
27 22 0.69
28 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (28 bp):
AAAATATATTTAATAATGTTAAGATAAA
Found at i:57772 original size:18 final size:18
Alignment explanation
Indices: 57740--57785 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
57730 AAAATATTTT
57740 TTAATGTTAAGATGTAAAA
1 TTAAT-TTAAGATGTAAAA
* * *
57759 TTAATTTAATATGTGAAT
1 TTAATTTAAGATGTAAAA
57777 TTAATTTAA
1 TTAATTTAA
57786 AATATATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 19 0.79
19 5 0.21
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (18 bp):
TTAATTTAAGATGTAAAA
Found at i:59032 original size:17 final size:17
Alignment explanation
Indices: 59010--59051 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
59000 CTGCTATATA
59010 TTCTACTATATGTTCTG
1 TTCTACTATATGTTCTG
*
59027 TTCTACTATTTGTTCTG
1 TTCTACTATATGTTCTG
59044 TTCTACTA
1 TTCTACTA
59052 GCCCACTCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.17, C:0.19, G:0.10, T:0.55
Consensus pattern (17 bp):
TTCTACTATATGTTCTG
Found at i:61654 original size:46 final size:46
Alignment explanation
Indices: 61595--61825 Score: 313
Period size: 46 Copynumber: 5.0 Consensus size: 46
61585 TGGTAAATTT
** * * *
61595 CATTTTATTTATGAAATCCTTTTATCCCTTAATGCATCATTTCATA
1 CATTTTATTTATGGCATCCTTTTATGCCTTAATGCATCCTTTCATG
*
61641 CATTTTATTTATGACAT-CTTTTCATGCCTTAATGCATCCTTTCATG
1 CATTTTATTTATGGCATCCTTTT-ATGCCTTAATGCATCCTTTCATG
* * *
61687 CATTTTATTTATGGCAT-ATTTTCATTCCTTAATGCATCTTTTCATG
1 CATTTTATTTATGGCATCCTTTT-ATGCCTTAATGCATCCTTTCATG
*
61733 CATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
1 CATTTTATTTATGGCATCCTTTTATGCCTTAATGCATCCTTTCATG
* * *
61779 CATTTTATTTATGGCATCCTTTCATGCCTTAGTACATCCTTTCATG
1 CATTTTATTTATGGCATCCTTTTATGCCTTAATGCATCCTTTCATG
61825 C
1 C
61826 CAATAATACA
Statistics
Matches: 169, Mismatches: 14, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
45 5 0.03
46 161 0.95
47 3 0.02
ACGTcount: A:0.22, C:0.22, G:0.09, T:0.48
Consensus pattern (46 bp):
CATTTTATTTATGGCATCCTTTTATGCCTTAATGCATCCTTTCATG
Found at i:61663 original size:26 final size:25
Alignment explanation
Indices: 61626--61805 Score: 120
Period size: 26 Copynumber: 7.6 Consensus size: 25
61616 TTATCCCTTA
* *
61626 ATGCATCATTTCATACATTTTATTT
1 ATGCATCTTTTCATGCATTTTATTT
*
61651 ATGACATCTTTTCATGC--CTTA---
1 ATG-CATCTTTTCATGCATTTTATTT
*
61672 ATGCATCCTTTCATGCATTTTATTT
1 ATGCATCTTTTCATGCATTTTATTT
* * *
61697 ATGGCATATTTTCATTC--CTTA---
1 AT-GCATCTTTTCATGCATTTTATTT
61718 ATGCATCTTTTCATGCATTTTATTT
1 ATGCATCTTTTCATGCATTTTATTT
* *
61743 ATGGCATCCTTTCATGC--CTTA---
1 AT-GCATCTTTTCATGCATTTTATTT
*
61764 ATGCATCCTTTCATGCATTTTATTT
1 ATGCATCTTTTCATGCATTTTATTT
*
61789 ATGGCATCCTTTCATGC
1 AT-GCATCTTTTCATGC
61806 CTTAGTACAT
Statistics
Matches: 121, Mismatches: 15, Indels: 37
0.70 0.09 0.21
Matches are distributed among these distances:
20 38 0.31
21 7 0.06
22 9 0.07
24 9 0.07
25 9 0.07
26 49 0.40
ACGTcount: A:0.22, C:0.21, G:0.09, T:0.48
Consensus pattern (25 bp):
ATGCATCTTTTCATGCATTTTATTT
Found at i:61683 original size:20 final size:20
Alignment explanation
Indices: 61655--61826 Score: 92
Period size: 20 Copynumber: 7.7 Consensus size: 20
61645 TTATTTATGA
*
61655 CATCTTTTCATGCCTTAATG
1 CATCCTTTCATGCCTTAATG
*
61675 CATCCTTTCATGCATTTTATTTATGG
1 CATCCTTTCATGC--CTTA---AT-G
** *
61701 CATATTTTCATTCCTTAATG
1 CATCCTTTCATGCCTTAATG
* *
61721 CATCTTTTCATGCATTTTATTTATGG
1 CATCCTTTCATGC--CTTA---AT-G
61747 CATCCTTTCATGCCTTAATG
1 CATCCTTTCATGCCTTAATG
*
61767 CATCCTTTCATGCATTTTATTTATGG
1 CATCCTTTCATGC--CTTA---AT-G
* *
61793 CATCCTTTCATGCCTTAGTA
1 CATCCTTTCATGCCTTAATG
61813 CATCCTTTCATGCC
1 CATCCTTTCATGCC
61827 AATAATACAC
Statistics
Matches: 119, Mismatches: 15, Indels: 36
0.70 0.09 0.21
Matches are distributed among these distances:
20 52 0.44
21 5 0.04
22 9 0.08
24 9 0.08
25 6 0.05
26 38 0.32
ACGTcount: A:0.20, C:0.24, G:0.10, T:0.47
Consensus pattern (20 bp):
CATCCTTTCATGCCTTAATG
Found at i:61866 original size:34 final size:34
Alignment explanation
Indices: 61817--62038 Score: 158
Period size: 34 Copynumber: 5.9 Consensus size: 34
61807 TTAGTACATC
* *
61817 CTTTCATGCCAATAATACACCCATATGCATTATT
1 CTTTTATGCCAATAATGCACCCATATGCATTATT
* *
61851 CTTTTATGCCGATAATGCATCCATATGCATTTCAGCTAT
1 CTTTTATGCCAATAATGCACCCATATGCA-TT-A--T-T
61890 GGCATCATTTCATGCCAATAATGC-CCCATATGCATTATT
1 --C-T--TTT-ATGCCAATAATGCACCCATATGCATTATT
* ***
61929 TTTTTATGTTGATAATGCACCCATATGCATTTCAACTATGGCAT
1 CTTTTATGCCAATAATGCACCCATATGCA--T----TAT----T
61973 CCTTTTATGCCAATAATGCACCCATATGCATTATT
1 -CTTTTATGCCAATAATGCACCCATATGCATTATT
*
62008 CTTTTATGCCGATAATGCACCCATATGCATT
1 CTTTTATGCCAATAATGCACCCATATGCATT
62039 TCAGCTAATG
Statistics
Matches: 150, Mismatches: 15, Indels: 46
0.71 0.07 0.22
Matches are distributed among these distances:
33 10 0.07
34 68 0.45
35 3 0.02
36 3 0.02
38 1 0.01
39 5 0.03
40 4 0.03
41 1 0.01
42 2 0.01
43 3 0.02
44 13 0.09
45 37 0.25
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (34 bp):
CTTTTATGCCAATAATGCACCCATATGCATTATT
Found at i:61928 original size:78 final size:79
Alignment explanation
Indices: 61813--62045 Score: 387
Period size: 78 Copynumber: 3.0 Consensus size: 79
61803 TGCCTTAGTA
* *
61813 CATCCTTTCATGCCAATAATACACCCATATGCATTATTCTTTTATGCCGATAATGCATCCATATG
1 CATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCCATATG
61878 CATTTCAGCTATGG
66 CATTTCAGCTATGG
* * **
61892 CATCATTTCATGCCAATAATGC-CCCATATGCATTATTTTTTTATGTTGATAATGCACCCATATG
1 CATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCCATATG
*
61956 CATTTCAACTATGG
66 CATTTCAGCTATGG
*
61970 CATCCTTTTATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCCATATG
1 CATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCCATATG
62035 CATTTCAGCTA
66 CATTTCAGCTA
62046 ATGTTCATCA
Statistics
Matches: 140, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
78 71 0.51
79 69 0.49
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.36
Consensus pattern (79 bp):
CATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCCATATG
CATTTCAGCTATGG
Found at i:62081 original size:2 final size:2
Alignment explanation
Indices: 62074--62110 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
62064 TAAATTTCAG
62074 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
62111 TAAACGTTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:63724 original size:26 final size:26
Alignment explanation
Indices: 63695--63826 Score: 126
Period size: 26 Copynumber: 5.5 Consensus size: 26
63685 AAGCCTTTCT
63695 GCATCCTTTCATGCATTTTATTTATG
1 GCATCCTTTCATGCATTTTATTTATG
* ** *
63721 GCAT-ATTT--T-CA-TTCCTTAAT-
1 GCATCCTTTCATGCATTTTATTTATG
*
63741 GCATCTTTTCATGCATTTTATTTATG
1 GCATCCTTTCATGCATTTTATTTATG
*
63767 GCATCCTTTCATGC--CTTA---AT-
1 GCATCCTTTCATGCATTTTATTTATG
63787 GCATCCTTTCATGCATTTTATTTATG
1 GCATCCTTTCATGCATTTTATTTATG
63813 GCATCCTTTCATGC
1 GCATCCTTTCATGC
63827 CTTAGTACAT
Statistics
Matches: 83, Mismatches: 11, Indels: 24
0.70 0.09 0.20
Matches are distributed among these distances:
20 18 0.22
21 11 0.13
22 5 0.06
23 2 0.02
24 5 0.06
25 11 0.13
26 31 0.37
ACGTcount: A:0.20, C:0.22, G:0.11, T:0.48
Consensus pattern (26 bp):
GCATCCTTTCATGCATTTTATTTATG
Found at i:63761 original size:46 final size:46
Alignment explanation
Indices: 63694--63846 Score: 252
Period size: 46 Copynumber: 3.3 Consensus size: 46
63684 TAAGCCTTTC
** *
63694 TGCATCCTTTCATGCATTTTATTTATGGCATATTTTCATTCCTTAA
1 TGCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAA
*
63740 TGCATCTTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAA
1 TGCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAA
*
63786 TGCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAG
1 TGCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAA
*
63832 TACATCCTTTCATGC
1 TGCATCCTTTCATGC
63847 CAATAATGCA
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 100 1.00
ACGTcount: A:0.20, C:0.23, G:0.10, T:0.47
Consensus pattern (46 bp):
TGCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAA
Found at i:63792 original size:20 final size:20
Alignment explanation
Indices: 63767--63847 Score: 81
Period size: 20 Copynumber: 3.8 Consensus size: 20
63757 TTTATTTATG
63767 GCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
*
63787 GCATCCTTTCATGCATTTTATTTAT
1 GCATCCTTTCATGC--CTTA---AT
*
63812 GGCATCCTTTCATGCCTTAGT
1 -GCATCCTTTCATGCCTTAAT
*
63833 ACATCCTTTCATGCC
1 GCATCCTTTCATGCC
63848 AATAATGCAC
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
20 28 0.55
21 1 0.02
22 3 0.06
24 3 0.06
25 2 0.04
26 14 0.27
ACGTcount: A:0.19, C:0.28, G:0.11, T:0.42
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:63887 original size:34 final size:34
Alignment explanation
Indices: 63838--64055 Score: 166
Period size: 34 Copynumber: 5.8 Consensus size: 34
63828 TTAGTACATC
*
63838 CTTTCATGCCAATAATGCACCCATATGCATTATT
1 CTTTTATGCCAATAATGCACCCATATGCATTATT
*
63872 CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTAT
1 CTTTTATGCCAATAATGCACCCATATGCA-TT-A--T-T
*
63911 GGCATCCTTTCATGCCAATAATGCACCCATATTCATTATT
1 --C-T--TTT-ATGCCAATAATGCACCCATATGCATTATT
* * *
63951 CTTTTATGTCGATAATGAACCCATATGCATTTCAACTAT
1 CTTTTATGCCAATAATGCACCCATATGCA-TT--A-T-T
*
63990 GACATCCTTTCATGCCAATAATGCACCCATATCCATTATT
1 --C-T--TTT-ATGCCAATAATGCACCCATATGCATTATT
*
64030 CTTTTATGCCGATAATGCACCCATAT
1 CTTTTATGCCAATAATGCACCCATAT
64056 ATATTTCAGC
Statistics
Matches: 149, Mismatches: 13, Indels: 44
0.72 0.06 0.21
Matches are distributed among these distances:
34 67 0.45
35 10 0.07
36 1 0.01
37 3 0.02
38 4 0.03
39 2 0.01
40 2 0.01
41 4 0.03
42 3 0.02
43 1 0.01
44 10 0.07
45 42 0.28
ACGTcount: A:0.28, C:0.26, G:0.10, T:0.35
Consensus pattern (34 bp):
CTTTTATGCCAATAATGCACCCATATGCATTATT
Found at i:63929 original size:79 final size:79
Alignment explanation
Indices: 63834--64090 Score: 442
Period size: 79 Copynumber: 3.3 Consensus size: 79
63824 TGCCTTAGTA
*
63834 CATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCCATATG
1 CATCCTTTCATGCCAATAATGCACCCATATCCATTATTCTTTTATGCCGATAATGCACCCATATG
63899 CATTTCAGCTATGG
66 CATTTCAGCTATGG
* * *
63913 CATCCTTTCATGCCAATAATGCACCCATATTCATTATTCTTTTATGTCGATAATGAACCCATATG
1 CATCCTTTCATGCCAATAATGCACCCATATCCATTATTCTTTTATGCCGATAATGCACCCATATG
* *
63978 CATTTCAACTATGA
66 CATTTCAGCTATGG
*
63992 CATCCTTTCATGCCAATAATGCACCCATATCCATTATTCTTTTATGCCGATAATGCACCCATATA
1 CATCCTTTCATGCCAATAATGCACCCATATCCATTATTCTTTTATGCCGATAATGCACCCATATG
*
64057 TATTTCAGCTATGG
66 CATTTCAGCTATGG
64071 CATCCTTTCATGCCAATAAT
1 CATCCTTTCATGCCAATAAT
64091 TATGAATTCG
Statistics
Matches: 166, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 166 1.00
ACGTcount: A:0.28, C:0.26, G:0.10, T:0.35
Consensus pattern (79 bp):
CATCCTTTCATGCCAATAATGCACCCATATCCATTATTCTTTTATGCCGATAATGCACCCATATG
CATTTCAGCTATGG
Found at i:66300 original size:16 final size:16
Alignment explanation
Indices: 66262--66307 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
66252 AATTCAATCA
* *
66262 AATTCAT-ATTATTTT
1 AATTCATAAATATATT
66277 AA-TCATAAATATATT
1 AATTCATAAATATATT
66292 AATTCATAAATATATT
1 AATTCATAAATATATT
66308 TTTTAATATC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 4 0.15
15 10 0.37
16 13 0.48
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTCATAAATATATT
Found at i:67092 original size:18 final size:18
Alignment explanation
Indices: 67034--67093 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
67024 AATTAATGTT
* *
67034 AAATAATAAAATAAAATA
1 AAATAAAAAAAGAAAATA
* *
67052 AAATAAAGAAAAAGGATATTA
1 AAAT-AA-AAAAA-GAAAATA
67073 AAATAAAAAAAGAAAATA
1 AAATAAAAAAAGAAAATA
67091 AAA
1 AAA
67094 AAATTTTTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
18 12 0.36
19 7 0.21
20 6 0.18
21 8 0.24
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.17
Consensus pattern (18 bp):
AAATAAAAAAAGAAAATA
Found at i:67094 original size:13 final size:13
Alignment explanation
Indices: 67072--67096 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67062 AAAGGATATT
67072 AAAATAAAAAAAG
1 AAAATAAAAAAAG
67085 AAAATAAAAAAA
1 AAAATAAAAAAA
67097 TTTTTAAAAA
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:0.88, C:0.00, G:0.04, T:0.08
Consensus pattern (13 bp):
AAAATAAAAAAAG
Found at i:67139 original size:34 final size:34
Alignment explanation
Indices: 67101--67174 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 34
67091 AAAAAATTTT
* *
67101 TAAAAATGGAAAAGAATTAAAATTAGGGTTAAAA
1 TAAAAATGGAAAAGAAATAAAACTAGGGTTAAAA
* * *
67135 T-AAAATTGAAAAGAAATGATACTAGGGTTAAAA
1 TAAAAATGGAAAAGAAATAAAACTAGGGTTAAAA
67168 TAAAAAT
1 TAAAAAT
67175 ATTAAATTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 28 0.82
34 6 0.18
ACGTcount: A:0.58, C:0.01, G:0.16, T:0.24
Consensus pattern (34 bp):
TAAAAATGGAAAAGAAATAAAACTAGGGTTAAAA
Found at i:68577 original size:40 final size:40
Alignment explanation
Indices: 68512--68634 Score: 119
Period size: 40 Copynumber: 3.0 Consensus size: 40
68502 CAAAAACAAT
* *
68512 ATAATATGTTCTCAAAGATTATATATATTATATACGTTTTCATA
1 ATAATATGTTTTCAAA-A--ATATATATTATATA-GTTTTCAAA
* *
68556 A-ACTAT-TTTTTAAAAACTATATATTATAT-GTTTTCAAA
1 ATAATATGTTTTCAAAAA-TATATATTATATAGTTTTCAAA
*
68594 ATAATATGTTTTCAAAAAT-TATATTATATATTTTTTCAAA
1 ATAATATGTTTTCAAAAATATATATTATATA-GTTTTCAAA
68634 A
1 A
68635 ATTATATTAT
Statistics
Matches: 67, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
38 19 0.28
39 6 0.09
40 30 0.45
41 1 0.01
42 6 0.09
43 4 0.06
44 1 0.01
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.47
Consensus pattern (40 bp):
ATAATATGTTTTCAAAAATATATATTATATAGTTTTCAAA
Found at i:68589 original size:38 final size:39
Alignment explanation
Indices: 68512--68627 Score: 112
Period size: 38 Copynumber: 2.9 Consensus size: 39
68502 CAAAAACAAT
* *
68512 ATAATATGTTCTCAAAGATTATATATATTATATACGTTTTCATA
1 ATAATATGTTTTCAAA-A--ATATATATTATAT--GTTTTCAAA
* *
68556 A-ACTAT-TTTTTAAAAACTATATATTATATGTTTTCAAA
1 ATAATATGTTTTCAAAAA-TATATATTATATGTTTTCAAA
*
68594 ATAATATGTTTTCAAAAAT-TATATTATATATTTT
1 ATAATATGTTTTCAAAAATATATATTATATGTTTT
68628 TTCAAAAATT
Statistics
Matches: 62, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
38 23 0.37
39 6 0.10
40 21 0.34
41 1 0.02
42 6 0.10
43 4 0.06
44 1 0.02
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (39 bp):
ATAATATGTTTTCAAAAATATATATTATATGTTTTCAAA
Found at i:68617 original size:17 final size:16
Alignment explanation
Indices: 68578--68617 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
68568 AAAACTATAT
68578 ATTATATGTTTTCAAA
1 ATTATATGTTTTCAAA
*
68594 ATAATATGTTTTCAAAA
1 ATTATATGTTTTC-AAA
68611 ATTATAT
1 ATTATAT
68618 TATATATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (16 bp):
ATTATATGTTTTCAAA
Found at i:68629 original size:24 final size:24
Alignment explanation
Indices: 68597--68660 Score: 119
Period size: 24 Copynumber: 2.7 Consensus size: 24
68587 TTTCAAAATA
68597 ATATGTTTTCAAAAATTATATTAT
1 ATATGTTTTCAAAAATTATATTAT
*
68621 ATATTTTTTCAAAAATTATATTAT
1 ATATGTTTTCAAAAATTATATTAT
68645 ATATGTTTTCAAAAAT
1 ATATGTTTTCAAAAAT
68661 CATTTTTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (24 bp):
ATATGTTTTCAAAAATTATATTAT
Found at i:68629 original size:64 final size:63
Alignment explanation
Indices: 68561--68721 Score: 206
Period size: 62 Copynumber: 2.6 Consensus size: 63
68551 TCATAAACTA
68561 TTTTTTAAAAACTATATATTATATGTTTTCAAAATAAT-ATGTTTTCAAAAA-T-TATATTATAT
1 TTTTTTAAAAACTATATATTATATGTTTTCAAAA-AATCAT-TTTTCAAAAACTATATATTATAT
* * *
68623 ATTTTTTCAAAAATTATAT-TATATATGTTTTC-AAAAATCATTTTTTAAGAACTATATATTATA
1 -TTTTTT-AAAAACTATATAT-TATATGTTTTCAAAAAATCATTTTTCAAAAACTATATATTATA
68686 T
63 T
*
68687 GTTTTTAAAAACTATATATTATATGTTTTCAAAAA
1 TTTTTTAAAAACTATATATTATATGTTTTCAAAAA
68722 CTATATCTTC
Statistics
Matches: 86, Mismatches: 5, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
62 32 0.37
63 23 0.27
64 31 0.36
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.49
Consensus pattern (63 bp):
TTTTTTAAAAACTATATATTATATGTTTTCAAAAAATCATTTTTCAAAAACTATATATTATAT
Found at i:68646 original size:62 final size:64
Alignment explanation
Indices: 68559--68721 Score: 212
Period size: 64 Copynumber: 2.6 Consensus size: 64
68549 TTTCATAAAC
68559 TATTTTTTAAAAACTATATATTATATGTTTTCAAAATAAT-ATGTTTTCAA-AAAT-TATATTAT
1 TATTTTTTAAAAACTATATATTATATGTTTTCAAAA-AATCAT-TTTTCAAGAAATATATATTAT
68621 A
64 A
* * *
68622 TATTTTTTCAAAAATTATAT-TATATATGTTTTC-AAAAATCATTTTTTAAGAACTATATATTAT
1 TATTTTTT-AAAAACTATATAT-TATATGTTTTCAAAAAATCATTTTTCAAGAAATATATATTAT
68685 A
64 A
*
68686 T-GTTTTTAAAAACTATATATTATATGTTTTCAAAAA
1 TATTTTTTAAAAACTATATATTATATGTTTTCAAAAA
68722 CTATATCTTC
Statistics
Matches: 88, Mismatches: 5, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
62 30 0.34
63 27 0.31
64 31 0.35
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.49
Consensus pattern (64 bp):
TATTTTTTAAAAACTATATATTATATGTTTTCAAAAAATCATTTTTCAAGAAATATATATTATA
Found at i:68679 original size:38 final size:39
Alignment explanation
Indices: 68623--68697 Score: 100
Period size: 38 Copynumber: 1.9 Consensus size: 39
68613 TATATTATAT
*
68623 ATTTTTTCAAAAATTATAT-TATATATGTTTTCAAAAATC
1 ATTTTTTCAAAAACTATATAT-TATATGTTTTCAAAAATC
* *
68662 ATTTTTT-AAGAACTATATATTATATGTTTTTAAAAA
1 ATTTTTTCAAAAACTATATATTATATGTTTTCAAAAA
68698 CTATATATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 24 0.75
39 8 0.25
ACGTcount: A:0.41, C:0.05, G:0.04, T:0.49
Consensus pattern (39 bp):
ATTTTTTCAAAAACTATATATTATATGTTTTCAAAAATC
Found at i:68699 original size:24 final size:24
Alignment explanation
Indices: 68664--68727 Score: 110
Period size: 24 Copynumber: 2.7 Consensus size: 24
68654 CAAAAATCAT
*
68664 TTTTTAAGAACTATATATTATATG
1 TTTTTAAAAACTATATATTATATG
68688 TTTTTAAAAACTATATATTATATG
1 TTTTTAAAAACTATATATTATATG
*
68712 TTTTCAAAAACTATAT
1 TTTTTAAAAACTATAT
68728 CTTCAATAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (24 bp):
TTTTTAAAAACTATATATTATATG
Found at i:68738 original size:15 final size:15
Alignment explanation
Indices: 68714--68757 Score: 79
Period size: 15 Copynumber: 2.9 Consensus size: 15
68704 ATTATATGTT
68714 TTCAAAAACTATATC
1 TTCAAAAACTATATC
*
68729 TTCAATAACTATATC
1 TTCAAAAACTATATC
68744 TTCAAAAACTATAT
1 TTCAAAAACTATAT
68758 ATATTATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.36
Consensus pattern (15 bp):
TTCAAAAACTATATC
Found at i:69742 original size:22 final size:22
Alignment explanation
Indices: 69715--69757 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
69705 TATTTTTTGG
69715 TTCTTGATTTTAGATTCTCTGA
1 TTCTTGATTTTAGATTCTCTGA
*
69737 TTCTTGATTTTGGATTCTCTG
1 TTCTTGATTTTAGATTCTCTG
69758 TTTCCTCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.14, C:0.14, G:0.16, T:0.56
Consensus pattern (22 bp):
TTCTTGATTTTAGATTCTCTGA
Found at i:80903 original size:5 final size:5
Alignment explanation
Indices: 80893--80917 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
80883 AAATTAGGAT
80893 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
80918 ATGAATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:82272 original size:28 final size:28
Alignment explanation
Indices: 82240--82293 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
82230 ATAATTTGTG
*
82240 TATATTAAAAAAACTATATAATATATAT
1 TATATTAAAAAAACAATATAATATATAT
**
82268 TATATTTCAAAAACAATATAATATAT
1 TATATTAAAAAAACAATATAATATAT
82294 TCTCAAAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (28 bp):
TATATTAAAAAAACAATATAATATATAT
Found at i:82312 original size:21 final size:20
Alignment explanation
Indices: 82261--82312 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
82251 AACTATATAA
82261 TATATATTATATTTCAAAAAC
1 TATATA-TATATTTCAAAAAC
* * *
82282 AATATAATATATTCTCAAAGAT
1 TATAT-ATATATT-TCAAAAAC
82304 TATATATAT
1 TATATATAT
82313 TATAAACGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.42
Consensus pattern (20 bp):
TATATATATATTTCAAAAAC
Found at i:82487 original size:78 final size:79
Alignment explanation
Indices: 82309--82486 Score: 213
Period size: 79 Copynumber: 2.3 Consensus size: 79
82299 AAGATTATAT
* * * *
82309 ATATTATAAACGTTTCCAAAAACCGTTTTTTAAAAAACTATATATTATATGTTTTCAAAATAATA
1 ATATTATATATGTTTTCAAAAACCGTTTTTTAAAAAACTATATATTATATGTTTGCAAAATAATA
*
82374 TGTTTTCAAAACCC
66 TGTTTTCAAAAACC
* **
82388 ATATTATATATGTTTTCAAAAACCGTTTTTT-AAGAACTATATATTATATGTTTGCAAGCAATCG
1 ATATTATATATGTTTTCAAAAACCGTTTTTTAAAAAACTATATATTATATGTTTGCAA--AATAA
*
82452 T-T-TTTT-AAAAACT
64 TATGTTTTCAAAAACC
82465 ATA-TATTATATGTTTTCAAAAA
1 ATATTA-TATATGTTTTCAAAAA
82487 ATATGTTTTC
Statistics
Matches: 87, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
76 2 0.02
77 24 0.28
78 28 0.32
79 29 0.33
80 4 0.05
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (79 bp):
ATATTATATATGTTTTCAAAAACCGTTTTTTAAAAAACTATATATTATATGTTTGCAAAATAATA
TGTTTTCAAAAACC
Found at i:82492 original size:15 final size:15
Alignment explanation
Indices: 82472--82516 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
82462 ACTATATATT
82472 ATATGTTTTCAAAAA
1 ATATGTTTTCAAAAA
82487 ATATGTTTTCAAAAA
1 ATATGTTTTCAAAAA
* * *
82502 CTATATCTTCAAAAA
1 ATATGTTTTCAAAAA
82517 TTATATATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.38
Consensus pattern (15 bp):
ATATGTTTTCAAAAA
Found at i:82501 original size:39 final size:39
Alignment explanation
Indices: 82336--82507 Score: 179
Period size: 39 Copynumber: 4.4 Consensus size: 39
82326 AAAAACCGTT
*
82336 TTTTAAAAAACTATATATTATATGTTTTCAAAATAATATG
1 TTTTCAAAAACTATATATTATATGTTTTCAAAA-AATATG
* * ***
82376 TTTTCAAAACCCATAT-TATATATGTTTTCAAAAACCGT-
1 TTTTCAAAAACTATATAT-TATATGTTTTCAAAAAATATG
* * * ** *
82414 TTTTTAAGAACTATATATTATATGTTTGCAAGCAAT-CG
1 TTTTCAAAAACTATATATTATATGTTTTCAAAAAATATG
*
82452 TTTTTTAAAAACTATATATTATATGTTTTCAAAAAATATG
1 -TTTTCAAAAACTATATATTATATGTTTTCAAAAAATATG
82492 TTTTCAAAAACTATAT
1 TTTTCAAAAACTATAT
82508 CTTCAAAAAT
Statistics
Matches: 105, Mismatches: 22, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
38 25 0.24
39 51 0.49
40 29 0.28
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (39 bp):
TTTTCAAAAACTATATATTATATGTTTTCAAAAAATATG
Found at i:82521 original size:15 final size:15
Alignment explanation
Indices: 82479--82522 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
82469 ATTATATGTT
* *
82479 TTCAAAAAATATGTT
1 TTCAAAAAATATATC
*
82494 TTCAAAAACTATATC
1 TTCAAAAAATATATC
*
82509 TTCAAAAATTATAT
1 TTCAAAAAATATAT
82523 ATTATATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (15 bp):
TTCAAAAAATATATC
Found at i:82978 original size:6 final size:6
Alignment explanation
Indices: 82967--83075 Score: 191
Period size: 6 Copynumber: 18.2 Consensus size: 6
82957 CAAGTTAATT
* * *
82967 CCATTG CCATTG CCATTG CCATTA CCATTA CCATTA CCATTA CCATTA
1 CCATTA CCATTA CCATTA CCATTA CCATTA CCATTA CCATTA CCATTA
83015 CCATTA CCATTA CCATTA CCATTA CCATTA CCATTA CCATTA CCATTA
1 CCATTA CCATTA CCATTA CCATTA CCATTA CCATTA CCATTA CCATTA
83063 CCATTA CCATTA C
1 CCATTA CCATTA C
83076 ATGATAAAGT
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
6 102 1.00
ACGTcount: A:0.30, C:0.34, G:0.03, T:0.33
Consensus pattern (6 bp):
CCATTA
Found at i:84927 original size:20 final size:20
Alignment explanation
Indices: 84902--84948 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
84892 TTTTCCAAAT
*
84902 TCGCAACGTGAATATGTAAA
1 TCGCAACGCGAATATGTAAA
* *
84922 TCGCAACGCGAATTTGTAAT
1 TCGCAACGCGAATATGTAAA
84942 TCGCAAC
1 TCGCAAC
84949 ACAGAAGTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGAATATGTAAA
Found at i:85143 original size:22 final size:22
Alignment explanation
Indices: 85115--85195 Score: 108
Period size: 22 Copynumber: 3.7 Consensus size: 22
85105 TCACTCTATA
*
85115 CGGCGATATCCGTCCCCATCCT
1 CGGCGATATCCGTCCCCATCCC
85137 CGGCGATATCCGTCCCCATCCC
1 CGGCGATATCCGTCCCCATCCC
* **
85159 CGGCGAAATCCGTCCCCATATC
1 CGGCGATATCCGTCCCCATCCC
* *
85181 CGGCAAAATCCGTCC
1 CGGCGATATCCGTCC
85196 TCATATCCGA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 54 1.00
ACGTcount: A:0.19, C:0.44, G:0.19, T:0.19
Consensus pattern (22 bp):
CGGCGATATCCGTCCCCATCCC
Found at i:85200 original size:22 final size:22
Alignment explanation
Indices: 85122--85204 Score: 87
Period size: 22 Copynumber: 3.8 Consensus size: 22
85112 ATACGGCGAT
* * *
85122 ATCCGTCCCCAT-CCTCGGCGAT
1 ATCCGTCCCCATATC-CGGCAAA
** *
85144 ATCCGTCCCCATCCCCGGCGAA
1 ATCCGTCCCCATATCCGGCAAA
85166 ATCCGTCCCCATATCCGGCAAA
1 ATCCGTCCCCATATCCGGCAAA
*
85188 ATCCGTCCTCATATCCG
1 ATCCGTCCCCATATCCG
85205 ACGACTCCCC
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
22 53 0.96
23 2 0.04
ACGTcount: A:0.19, C:0.45, G:0.16, T:0.20
Consensus pattern (22 bp):
ATCCGTCCCCATATCCGGCAAA
Found at i:85652 original size:19 final size:20
Alignment explanation
Indices: 85628--85682 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
85618 AAAATCGCAA
85628 TGCGATTTTAGTTTT-GCGT
1 TGCGATTTTAGTTTTCGCGT
85647 TGCGATTTTCA-TTTTCGCGT
1 TGCGATTTT-AGTTTTCGCGT
*
85667 TGCGAATTTAAGTTTT
1 TGCG-ATTTTAGTTTT
85683 AGAAACTACT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 13 0.42
20 10 0.32
21 8 0.26
ACGTcount: A:0.15, C:0.13, G:0.22, T:0.51
Consensus pattern (20 bp):
TGCGATTTTAGTTTTCGCGT
Found at i:87613 original size:4 final size:4
Alignment explanation
Indices: 87604--87646 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
87594 TTTTTTCGGC
* * * *
87604 TTTA TTTA TTTA TTTA TTTA CTGA TTTA TGTA TTAA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
87647 TTAGCGGCTT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (4 bp):
TTTA
Found at i:87818 original size:21 final size:21
Alignment explanation
Indices: 87792--87909 Score: 116
Period size: 21 Copynumber: 5.6 Consensus size: 21
87782 TTCACCTGTA
*
87792 ATCGTTCAAGAGGCCCCTCCT
1 ATCGTTCAAGAGGTCCCTCCT
87813 ATCGTTCAAGAGG--CCTCTCT
1 ATCGTTCAAGAGGTCCCTC-CT
* *
87833 CATTGTTCAAGAGGTCCCTCCC
1 -ATCGTTCAAGAGGTCCCTCCT
* *
87855 ACCATTCAAGAGGTTCCCT-CT
1 ATCGTTCAAGAGG-TCCCTCCT
*
87876 CATCGTTCAAGAGGTCCCTCCC
1 -ATCGTTCAAGAGGTCCCTCCT
*
87898 ACCGTTCAAGAG
1 ATCGTTCAAGAG
87910 CCCGATTCAC
Statistics
Matches: 80, Mismatches: 10, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
19 4 0.05
20 2 0.03
21 52 0.65
22 18 0.22
23 4 0.05
ACGTcount: A:0.21, C:0.35, G:0.19, T:0.25
Consensus pattern (21 bp):
ATCGTTCAAGAGGTCCCTCCT
Found at i:87888 original size:43 final size:42
Alignment explanation
Indices: 87792--87909 Score: 166
Period size: 43 Copynumber: 2.8 Consensus size: 42
87782 TTCACCTGTA
* * *
87792 ATCGTTCAAGAGGCCCCTCCTATCGTTCAAGAGGCCTCTCTC
1 ATCGTTCAAGAGGTCCCTCCCACCGTTCAAGAGGCCTCTCTC
* *
87834 ATTGTTCAAGAGGTCCCTCCCACCATTCAAGAGGTTCC-CTCTC
1 ATCGTTCAAGAGGTCCCTCCCACCGTTCAAGAGG--CCTCTCTC
87877 ATCGTTCAAGAGGTCCCTCCCACCGTTCAAGAG
1 ATCGTTCAAGAGGTCCCTCCCACCGTTCAAGAG
87910 CCCGATTCAC
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
42 29 0.43
43 36 0.54
44 2 0.03
ACGTcount: A:0.21, C:0.35, G:0.19, T:0.25
Consensus pattern (42 bp):
ATCGTTCAAGAGGTCCCTCCCACCGTTCAAGAGGCCTCTCTC
Found at i:89442 original size:20 final size:20
Alignment explanation
Indices: 89417--89455 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
89407 ATAGTCAAAT
*
89417 TCGCAACATGAATTTGACTA
1 TCGCAACACGAATTTGACTA
*
89437 TCGCAACGCGAATTTGACT
1 TCGCAACACGAATTTGACT
89456 CAAGTTACTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (20 bp):
TCGCAACACGAATTTGACTA
Found at i:89732 original size:137 final size:137
Alignment explanation
Indices: 89483--89987 Score: 872
Period size: 137 Copynumber: 3.7 Consensus size: 137
89473 TTCAACTGAA
*
89483 AATGTTCAAACTCAAGTTACTAATGCATGTCTAACTGAAAATGTATGTATTCACACATAAAATAC
1 AATGTTCAAACTCAAGTTACTAATGCATGTCTAACTGAAAATGTATGCATTCACACATAAAATAC
* *
89548 ACATAATACAACGTTTGTATTTAAAAATCACACATAAAATACTTGTTCAAACTCAACAGAACAAA
66 ACATAATACAACGTTTGCATTTAAAAATCACACATAAAATACATGTTCAAACTCAACAGAACAAA
*
89613 TCATAAC
131 TCATAGC
*
89620 AATGTTCAAACTCAAGTTACTAATGCATGTCTAACTGAAAATGTATGCGTTCACACATAAAATAC
1 AATGTTCAAACTCAAGTTACTAATGCATGTCTAACTGAAAATGTATGCATTCACACATAAAATAC
*
89685 ACATAATACAACGTTTGCATTTAAAAATCACACATAAAATACATGTTCAAACTCAACATAACAAA
66 ACATAATACAACGTTTGCATTTAAAAATCACACATAAAATACATGTTCAAACTCAACAGAACAAA
89750 TCATAGC
131 TCATAGC
89757 AATGTTCAAACTCAAGTTACTAATGCATGTCTAACTGAAAATGTATGCATTCACACATAAAATAC
1 AATGTTCAAACTCAAGTTACTAATGCATGTCTAACTGAAAATGTATGCATTCACACATAAAATAC
* * *
89822 ACATAATACAACGTTTACATATAAAAAT-ATCACATAAAATACATGTTCAAACTCAACAGAACAG
66 ACATAATACAACGTTTGCATTTAAAAATCA-CACATAAAATACATGTTCAAACTCAACAGAACAA
89886 ATC--AGC
130 ATCATAGC
* * *
89892 AATGTTCAAACTCAAGTTACTAATGCATGTCTGACTGAAAATATATGCGTTCACACATAAAATAC
1 AATGTTCAAACTCAAGTTACTAATGCATGTCTAACTGAAAATGTATGCATTCACACATAAAATAC
89957 ACATAATACAACGTTTGCATTTAAAAATCAC
66 ACATAATACAACGTTTGCATTTAAAAATCAC
89988 CTAAGTTAAT
Statistics
Matches: 350, Mismatches: 16, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
135 92 0.26
136 2 0.01
137 256 0.73
ACGTcount: A:0.45, C:0.19, G:0.09, T:0.28
Consensus pattern (137 bp):
AATGTTCAAACTCAAGTTACTAATGCATGTCTAACTGAAAATGTATGCATTCACACATAAAATAC
ACATAATACAACGTTTGCATTTAAAAATCACACATAAAATACATGTTCAAACTCAACAGAACAAA
TCATAGC
Found at i:90046 original size:18 final size:18
Alignment explanation
Indices: 90023--90058 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
90013 AAGCCGGTTG
*
90023 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
90041 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
90059 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Done.