Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1507
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: 297493
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 1 of 2
Found at i:1592 original size:13 final size:13
Alignment explanation
Indices: 1574--1599 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1564 TACATTTGTC
1574 ATGTATCGATACA
1 ATGTATCGATACA
1587 ATGTATCGATACA
1 ATGTATCGATACA
1600 TCTTATATGT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1594 original size:32 final size:32
Alignment explanation
Indices: 1553--1619 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 32
1543 CATTACAAGC
*
1553 CAATGTATCGATACAT-TTGTCATGTATCGATA
1 CAATGTATCGATACATCTTAT-ATGTATCGATA
1585 CAATGTATCGATACATCTTATATGTATCGATA
1 CAATGTATCGATACATCTTATATGTATCGATA
1617 CAA
1 CAA
1620 ACAGTTAAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
32 30 0.91
33 3 0.09
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.36
Consensus pattern (32 bp):
CAATGTATCGATACATCTTATATGTATCGATA
Found at i:2655 original size:14 final size:13
Alignment explanation
Indices: 2634--2667 Score: 59
Period size: 14 Copynumber: 2.5 Consensus size: 13
2624 AGTATTAGAC
2634 TTCACATCATGCA
1 TTCACATCATGCA
2647 TTCCACATCATGCA
1 TT-CACATCATGCA
2661 TTCACAT
1 TTCACAT
2668 TACCATCACA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.35
14 13 0.65
ACGTcount: A:0.29, C:0.32, G:0.06, T:0.32
Consensus pattern (13 bp):
TTCACATCATGCA
Found at i:3366 original size:32 final size:31
Alignment explanation
Indices: 3325--3446 Score: 126
Period size: 31 Copynumber: 3.9 Consensus size: 31
3315 GTGGCAATCT
* *
3325 CTTTTCTTAAGCCCACACGAGTTGGTGGCAA
1 CTTTTCTAAAGCCCACACAAGTTGGTGGCAA
*
3356 CTTCTTCTTAAA-CCCACACGAA-TTGGTGGCAT
1 CTT-TTC-TAAAGCCCACAC-AAGTTGGTGGCAA
* *
3388 CTTTT-TCAAAGCTCACACAAGTTAGTGGCAA
1 CTTTTCT-AAAGCCCACACAAGTTGGTGGCAA
3419 CCTTTT-TAAAGCCCACACAAGTTGGTGG
1 -CTTTTCTAAAGCCCACACAAGTTGGTGG
3447 AAACCCTGTC
Statistics
Matches: 76, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
29 1 0.01
30 5 0.07
31 38 0.50
32 28 0.37
33 4 0.05
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (31 bp):
CTTTTCTAAAGCCCACACAAGTTGGTGGCAA
Found at i:3416 original size:31 final size:31
Alignment explanation
Indices: 3312--3451 Score: 115
Period size: 31 Copynumber: 4.4 Consensus size: 31
3302 CTATCAGTCT
* *
3312 TTAGTGGCAATCTCTTTTCTTAAGCCCACACGAG
1 TTAGTGGCAA-C-CTTTT-TAAAGCCCACACAAG
* *
3346 TTGGTGGCAACTTCTTCTTAAA-CCCACACGAA-
1 TTAGTGGCAAC--CTTTTTAAAGCCCACAC-AAG
* * *
3378 TTGGTGGC-ATCTTTTTCAAAGCTCACACAAG
1 TTAGTGGCAACCTTTTT-AAAGCCCACACAAG
3409 TTAGTGGCAACCTTTTTAAAGCCCACACAAG
1 TTAGTGGCAACCTTTTTAAAGCCCACACAAG
* *
3440 TTGGTGGAAACC
1 TTAGTGGCAACC
3452 CTGTCAAAAG
Statistics
Matches: 88, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
29 5 0.06
30 5 0.06
31 37 0.42
32 22 0.25
33 5 0.06
34 14 0.16
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (31 bp):
TTAGTGGCAACCTTTTTAAAGCCCACACAAG
Found at i:3417 original size:63 final size:65
Alignment explanation
Indices: 3315--3446 Score: 157
Period size: 63 Copynumber: 2.1 Consensus size: 65
3305 TCAGTCTTTA
* * *
3315 GTGGCAATCTCTTTTCTTAAGCCCACACGAGTTGGTGGCAACTTCTTCTTAAA-CCCACACGAA-
1 GTGGCAATCTCTTTTCTAAAGCCCACACAAGTTAGTGGCAAC--CTTCTTAAAGCCCACAC-AAG
3378 TTG
63 TTG
* *
3381 GTGGC-ATCT-TTTTC-AAAGCTCACACAAGTTAGTGGCAACCTTTTTAAAGCCCACACAAGTTG
1 GTGGCAATCTCTTTTCTAAAGCCCACACAAGTTAGTGGCAACCTTCTTAAAGCCCACACAAGTTG
3443 GTGG
1 GTGG
3447 AAACCCTGTC
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
61 10 0.17
62 14 0.24
63 21 0.36
64 5 0.08
65 4 0.07
66 5 0.08
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (65 bp):
GTGGCAATCTCTTTTCTAAAGCCCACACAAGTTAGTGGCAACCTTCTTAAAGCCCACACAAGTTG
Found at i:3563 original size:52 final size:52
Alignment explanation
Indices: 3496--4516 Score: 588
Period size: 52 Copynumber: 19.5 Consensus size: 52
3486 TTATAAGCCT
* *
3496 AATGTTGCTGGCCTTGAATCAGCACATTGGCACCCTTATCATCTTAAAGTCC
1 AATGTCGCTGGCCTTGAATCAGCACATTGGCACCCTTATCATCTTTAAGTCC
* * * *
3548 AATATCGCTAGCCTTGAATCAGCATATTGGCAGCCC-TACCATCTTTAAGTCC
1 AATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCCTTATCATCTTTAAGTCC
* * * * * * * *
3600 AATGTCACTAGCCCTAAATTAACGCATTGGCACTC-T-TCATCTTTAAGTCC
1 AATGTCGCTGGCCTTGAATCAGCACATTGGCACCCTTATCATCTTTAAGTCC
* * * * * *
3650 AATGTCGTTGGCTTTGAATCAGTATATTAGCACCCTTATCATCTTAAAGTCC
1 AATGTCGCTGGCCTTGAATCAGCACATTGGCACCCTTATCATCTTTAAGTCC
* * * * * *
3702 AATATTGCTGGCCTTAAATCAACATATTGGCA-CC-TACCATCTTTAAGTCC
1 AATGTCGCTGGCCTTGAATCAGCACATTGGCACCCTTATCATCTTTAAGTCC
* * * * *
3752 AATGTCGTTGGCCTTGAATCAACGCATTGGCACTC-T-TCATCTTTAAGTCA
1 AATGTCGCTGGCCTTGAATCAGCACATTGGCACCCTTATCATCTTTAAGTCC
* * * * * * * *
3802 AATAG-CGTTGGCTTTGACTCAACATATTCGCTCCCTTATCATCTTAAAGTCC
1 AAT-GTCGCTGGCCTTGAATCAGCACATTGGCACCCTTATCATCTTTAAGTCC
* * * * * * *
3854 AATATCGCTGGCCTTGAATCAGCATATTGGCACCCCTACCAGCTTTATGTCT
1 AATGTCGCTGGCCTTGAATCAGCACATTGGCACCCTTATCATCTTTAAGTCC
** * * *
3906 AATGTTACTGGCCTTGAATCATCACATTAGCA--CTTGTCAAAACCTTCTTTCTGAAGTCC
1 AATGTCGCTGGCCTTGAATCAGCACATTGGCACCCTTATC---A---TC-TT-T-AAGTCC
* * * * * ** * * *
3965 ATTATCGCTAGCCTTGAATCAACATATTGGCACTTTTGTTAACTTTAAGTCC
1 AATGTCGCTGGCCTTGAATCAGCACATTGGCACCCTTATCATCTTTAAGTCC
* * * * * *
4017 AATGTTGCTGGCCTAGAATTAGCACATTGGCATCTTTGTCATCTTTAAG-CTC
1 AATGTCGCTGGCCTTGAATCAGCACATTGGCACCCTTATCATCTTTAAGTC-C
* * * * * *
4069 TATGTCACTGG-CTCTGAATTAGTACATTGGCAACC-T-TCATCTTTAAATCC
1 AATGTCGCTGGCCT-TGAATCAGCACATTGGCACCCTTATCATCTTTAAGTCC
* * * * * * * * *
4119 AAATATCGCTAGTCTTGAATCAACATATTGGCACCTTTCTCAACTTTGAGTCC
1 -AATGTCGCTGGCCTTGAATCAGCACATTGGCACCCTTATCATCTTTAAGTCC
* * * * * * * * * *
4172 AATGTCGCTAGTCTTGAATCAACATATTAGTA-CATCTACCATCTTCAAGTCT
1 AATGTCGCTGGCCTTGAATCAGCACATTGGCACCCT-TATCATCTTTAAGTCC
* * * ** * *
4224 AATGTCGTTGGCCTTGAATCAACACATTGACACTCGTCAAAACCTTCTTTCCAAAGTCC
1 AATGTCGCTGGCCTTGAATCAGCACATTGGCAC-C--C-TTATCATCTTT---AAGTCC
** * * *
4283 AATGTCATTGGCCTTGAATTAGCACATTGGCACCCTCATCATCTTCAAGTCC
1 AATGTCGCTGGCCTTGAATCAGCACATTGGCACCCTTATCATCTTTAAGTCC
* * * * *
4335 AATGTCACTGG-CTTGGAATCAGCACGTTGGCACCTTTGTTATCTTTAAG-CC
1 AATGTCGCTGGCCTT-GAATCAGCACATTGGCACCCTTATCATCTTTAAGTCC
* * * *
4386 TAGTGTCGCTGGCCGTGAATCAGCACATTGGCA-ACTT-TCATCTTTAAGTTC
1 -AATGTCGCTGGCCTTGAATCAGCACATTGGCACCCTTATCATCTTTAAGTCC
* * * * *
4437 AATGTCACTAGCCTTGAATCAGCACATTGGCACCTTTATCATCATTAAGTCT
1 AATGTCGCTGGCCTTGAATCAGCACATTGGCACCCTTATCATCTTTAAGTCC
* **
4489 AATGTAGCAAGCCTTGAAT-ATGCACATT
1 AATGTCGCTGGCCTTGAATCA-GCACATT
4517 ATCACATTAC
Statistics
Matches: 740, Mismatches: 187, Indels: 84
0.73 0.18 0.08
Matches are distributed among these distances:
50 165 0.22
51 50 0.07
52 417 0.56
53 18 0.02
54 3 0.00
55 7 0.01
56 9 0.01
57 2 0.00
58 3 0.00
59 62 0.08
61 4 0.01
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.33
Consensus pattern (52 bp):
AATGTCGCTGGCCTTGAATCAGCACATTGGCACCCTTATCATCTTTAAGTCC
Found at i:3677 original size:102 final size:102
Alignment explanation
Indices: 3512--3894 Score: 306
Period size: 102 Copynumber: 3.7 Consensus size: 102
3502 GCTGGCCTTG
* * * * * *
3512 AATCAGCACATTGGCACCCTTATCATCTTAAAGTCCAATATCGCTAGCCTTGAATCAGCATATTG
1 AATCAACACATTGGCA-CC-TATCATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCATATTA
* *
3577 GCAGCCC-TACCATCTTTAAGTCCAATGTCACTAGCCCTA
64 GCA-CCCTTACCATCTTAAAGTCCAATATCACTAGCCCTA
* * * *
3616 AATTAACGCATTGGCACTCT-TCATCTTTAAGTCCAATGTCGTTGGCTTTGAATCAGTATATTAG
1 AATCAACACATTGGCAC-CTATCATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCATATTAG
* ** * *
3680 CACCCTTATCATCTTAAAGTCCAATATTGCTGGCCTTA
65 CACCCTTACCATCTTAAAGTCCAATATCACTAGCCCTA
* * * ** *
3718 AATCAACATATTGGCACCTACCATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAACGCATTGGC
1 AATCAACACATTGGCACCTATCATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCATATTAGC
* * * * ** * ** *
3783 ACTCTT--CATCTTTAAGTCAAATAGCGTTGGCTTTG
66 ACCCTTACCATCTTAAAGTCCAATATCACTAGCCCTA
* * * * * * * *
3818 ACTCAACATATTCGCTCCCTTATCATCTTAAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
1 AATCAACACATTGGC-ACC-TATCATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCATATTA
*
3883 GCACCCCTACCA
64 GCACCCTTACCA
3895 GCTTTATGTC
Statistics
Matches: 225, Mismatches: 47, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
100 35 0.16
101 7 0.03
102 165 0.73
103 2 0.01
104 16 0.07
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (102 bp):
AATCAACACATTGGCACCTATCATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCATATTAGC
ACCCTTACCATCTTAAAGTCCAATATCACTAGCCCTA
Found at i:3811 original size:152 final size:153
Alignment explanation
Indices: 3504--4484 Score: 607
Period size: 163 Copynumber: 6.3 Consensus size: 153
3494 CTAATGTTGC
* * * *
3504 TGGCCTTGAATCAGCACATTGGCACCCTTATCATCTTAAAGTCCAATATCGCTAGCCTTGAATCA
1 TGGCTTTGAATCAGCATATTAGCACCCTTATCATCTTAAAGTCCAATATCGCTGGCCTTGAATCA
* * * *
3569 GCATATTGGCAGCCCTACCATCTTTAAGTCCAATGTCACTAGCCCTAAATTAACGCATTGGCACT
66 GCATATTGGCA-CCCTACCATCTTTAAGTCCAATGTCACTGGCCTTGAATCAACGCATTGGCACT
*
3634 CTTCATCTTTAAGTCCAATGTCGT
130 CTTCATCTTTAAGTCAAATGTCGT
* * *
3658 TGGCTTTGAATCAGTATATTAGCACCCTTATCATCTTAAAGTCCAATATTGCTGGCCTTAAATCA
1 TGGCTTTGAATCAGCATATTAGCACCCTTATCATCTTAAAGTCCAATATCGCTGGCCTTGAATCA
* **
3723 ACATATTGGCA-CCTACCATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAACGCATTGGCACTC
66 GCATATTGGCACCCTACCATCTTTAAGTCCAATGTCACTGGCCTTGAATCAACGCATTGGCACTC
3787 TTCATCTTTAAGTCAAATAG-CGT
131 TTCATCTTTAAGTCAAAT-GTCGT
* * * *
3810 TGGCTTTGACTCAACATATTCGCTCCCTTATCATCTTAAAGTCCAATATCGCTGGCCTTGAATCA
1 TGGCTTTGAATCAGCATATTAGCACCCTTATCATCTTAAAGTCCAATATCGCTGGCCTTGAATCA
* * * * * * *
3875 GCATATTGGCACCCCTACCAGCTTTATGTCTAATGTTACTGGCCTTGAATCATCACATTAGCACT
66 GCATATTGGCA-CCCTACCATCTTTAAGTCCAATGTCACTGGCCTTGAATCAACGCATTGGCACT
* * * *
3940 -TGTCAAAACCTTCTTTCTGAAGTCCATTATCGC
130 CT-TC---A---TC-TT-T-AAGTCAAATGTCGT
* * * * ** * * * * * * * *
3973 TAGCCTTGAATCAACATATTGGCACTTTTGTTAACTTTAAGTCCAATGTTGCTGGCCTAGAATTA
1 TGGCTTTGAATCAGCATATTAGCACCCTTATCATCTTAAAGTCCAATATCGCTGGCCTTGAATCA
* ** ** * * ***
4038 GCACATTGGCATCTTTGTCATCTTTAAG-CTCTATGTCACTGG-CTCTGAATTAGTACATTGGCA
66 GCATATTGGCA-CCCTACCATCTTTAAGTC-CAATGTCACTGGCCT-TGAATCAACGCATTGGC-
* * *
4101 AC-CTTCATCTTTAAATCCAAATATCGC
127 ACTCTTCATCTTTAAGT-CAAATGTCGT
* * * * * * ** * * *
4128 TAG-TCTTGAATCAACATATTGGCACCTTTCTCAACTTTGAGTCCAATGTCGCTAGTCTTGAATC
1 TGGCT-TTGAATCAGCATATTAGCACCCTTATCATCTTAAAGTCCAATATCGCTGGCCTTGAATC
* * * * * * ** * *
4192 AACATATTAGTACATCTACCATCTTCAAGTCTAATGTCGTTGGCCTTGAATCAACACATTGACAC
65 AGCATATTGGCAC-CCTACCATCTTTAAGTCCAATGTCACTGGCCTTGAATCAACGCATTGGCAC
* * *
4257 TCGTCAAAACCTTCTTTCCAAAGTCCAATGTCAT
129 TCTTC---A---TCTTT---AAGTCAAATGTCGT
* * * * * * * *
4291 TGGCCTTGAATTAGCACATTGGCACCCTCATCATCTTCAAGTCCAATGTCACTGG-CTTGGAATC
1 TGGCTTTGAATCAGCATATTAGCACCCTTATCATCTTAAAGTCCAATATCGCTGGCCTT-GAATC
** * *** * * * * *
4355 AGCACGTTGGCACCTTTGTTATCTTTAAG-CCTAGTGTCGCTGGCCGTGAATCAGCACATTGGCA
65 AGCATATTGGCACC-CTACCATCTTTAAGTCC-AATGTCACTGGCCTTGAATCAACGCATTGGC-
**
4419 ACT-TTCATCTTTAAGTTC-AATGTCAC
127 ACTCTTCATCTTTAAG-TCAAATGTCGT
* * * * *
4445 TAGCCTTGAATCAGCACATTGGCACCTTTATCATCATTAA
1 TGGCTTTGAATCAGCATATTAGCACCCTTATCATC-TTAA
4485 GTCTAATGTA
Statistics
Matches: 649, Mismatches: 138, Indels: 79
0.75 0.16 0.09
Matches are distributed among these distances:
152 135 0.21
153 2 0.00
154 160 0.25
155 110 0.17
156 5 0.01
157 8 0.01
158 1 0.00
160 4 0.01
161 7 0.01
162 8 0.01
163 200 0.31
164 9 0.01
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.33
Consensus pattern (153 bp):
TGGCTTTGAATCAGCATATTAGCACCCTTATCATCTTAAAGTCCAATATCGCTGGCCTTGAATCA
GCATATTGGCACCCTACCATCTTTAAGTCCAATGTCACTGGCCTTGAATCAACGCATTGGCACTC
TTCATCTTTAAGTCAAATGTCGT
Found at i:4238 original size:318 final size:317
Alignment explanation
Indices: 3506--4473 Score: 739
Period size: 318 Copynumber: 3.1 Consensus size: 317
3496 AATGTTGCTG
* * * * ** *
3506 GCCTTGAATCAGCACATTGGCACCCTTATCATCTTAAAGTCCAATATCGCTAGCCTTGAATCAGC
1 GCCTTGAATCAACACATTGGCACCTTTCTCAACTTTGAGTCCAATATCGCTAGCCTTGAATCAAC
* * * * * * * * * *
3571 ATATTGGCAGC-CCTACCATCTTTAAGTCCAATGTCACTAGCCCTAAATTAACGCATTGGCACTC
66 ATATTAGCA-CACCTACCAGCTTCAAGTCTAATGTCACTGGCCTTGAATCAACACATTGACACTC
* * ** * * ** * * *
3635 TTC---A---TCTTT---AAGTCCAATGTCGTTGGCTTTGAATCAGTATATTAGCACCCTTATCA
130 GTCAAAACCTTCTTTCCAAAGTCCAATATCACTAGCCTTGAATCAACACATTGGCACCCTCATCA
* * * ** * * **
3691 TCTTAAAGTCCAATATTGCTGGCCTTA-AATCAACATATTGGCACC--TACCATCTTTAAGTCC-
195 ACTTCAAGTCCAATGTCACTGGCC-TAGAATCAGCACATTGGCACCTTTGTCATCTTTAAG-CCT
* ** * * * * * * ** *
3752 AATGTCGTTGGCCTTGAATCAACGCATTGGC-ACTCTTCATCTTTAAGTCAAATAGCGTTG
258 AGTGTCACTGGCCGTGAATCAGCACATTGGCAAC-CTTCATCTTTAAATCCAATATCACTA
* * * * * * * * ** * *
3812 GCTTTGACTCAACATATTCGCTCCCTTATCATCTTAAAGTCCAATATCGCTGGCCTTGAATCAGC
1 GCCTTGAATCAACACATTGGCACCTTTCTCAACTTTGAGTCCAATATCGCTAGCCTTGAATCAAC
* * * * * * *
3877 ATATTGGCACCCCTACCAGCTTTATGTCTAATGTTACTGGCCTTGAATCATCACATT-AGCACTT
66 ATATTAGCACACCTACCAGCTTCAAGTCTAATGTCACTGGCCTTGAATCAACACATTGA-CACTC
** * * * ** ** *
3941 GTCAAAACCTTCTTTCTGAAGTCCATTATCGCTAGCCTTGAATCAACATATTGGCACTTTTGTTA
130 GTCAAAACCTTCTTTCCAAAGTCCAATATCACTAGCCTTGAATCAACACATTGGCACCCTCATCA
* ** * *
4006 ACTTTAAGTCCAATGTTGCTGGCCTAGAATTAGCACATTGGCATCTTTGTCATCTTTAAGCTCTA
195 ACTTCAAGTCCAATGTCACTGGCCTAGAATCAGCACATTGGCACCTTTGTCATCTTTAAGC-CTA
* * *
4071 -TGTCACTGGCTC-TGAATTAGTACATTGGCAACCTTCATCTTTAAATCCAAATATCGCTA
259 GTGTCACTGGC-CGTGAATCAGCACATTGGCAACCTTCATCTTTAAATCC-AATATCACTA
* * * *
4130 GTCTTGAATCAACATATTGGCACCTTTCTCAACTTTGAGTCCAATGTCGCTAGTCTTGAATCAAC
1 GCCTTGAATCAACACATTGGCACCTTTCTCAACTTTGAGTCCAATATCGCTAGCCTTGAATCAAC
* * * **
4195 ATATTAGTACATCTACCATCTTCAAGTCTAATGTCGTTGGCCTTGAATCAACACATTGACACTCG
66 ATATTAGCACACCTACCAGCTTCAAGTCTAATGTCACTGGCCTTGAATCAACACATTGACACTCG
* * * * * *
4260 TCAAAACCTTCTTTCCAAAGTCCAATGTCATTGGCCTTGAATTAGCACATTGGCACCCTCATCAT
131 TCAAAACCTTCTTTCCAAAGTCCAATATCACTAGCCTTGAATCAACACATTGGCACCCTCATCAA
* * * *
4325 CTTCAAGTCCAATGTCACTGGCTTGGAATCAGCACGTTGGCACCTTTGTTATCTTTAAGCCTAGT
196 CTTCAAGTCCAATGTCACTGGCCTAGAATCAGCACATTGGCACCTTTGTCATCTTTAAGCCTAGT
* * * * *
4390 GTCGCTGGCCGTGAATCAGCACATTGGCAACTTTCATCTTTAAGTTCAATGTCACTA
261 GTCACTGGCCGTGAATCAGCACATTGGCAACCTTCATCTTTAAATCCAATATCACTA
*
4447 GCCTTGAATCAGCACATTGGCACCTTT
1 GCCTTGAATCAACACATTGGCACCTTT
4474 ATCATCATTA
Statistics
Matches: 526, Mismatches: 114, Indels: 33
0.78 0.17 0.05
Matches are distributed among these distances:
305 1 0.00
306 109 0.21
309 1 0.00
312 5 0.01
314 2 0.00
315 70 0.13
316 1 0.00
317 83 0.16
318 253 0.48
319 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (317 bp):
GCCTTGAATCAACACATTGGCACCTTTCTCAACTTTGAGTCCAATATCGCTAGCCTTGAATCAAC
ATATTAGCACACCTACCAGCTTCAAGTCTAATGTCACTGGCCTTGAATCAACACATTGACACTCG
TCAAAACCTTCTTTCCAAAGTCCAATATCACTAGCCTTGAATCAACACATTGGCACCCTCATCAA
CTTCAAGTCCAATGTCACTGGCCTAGAATCAGCACATTGGCACCTTTGTCATCTTTAAGCCTAGT
GTCACTGGCCGTGAATCAGCACATTGGCAACCTTCATCTTTAAATCCAATATCACTA
Found at i:4485 original size:102 final size:104
Alignment explanation
Indices: 4291--4485 Score: 261
Period size: 102 Copynumber: 1.9 Consensus size: 104
4281 CCAATGTCAT
* * * *
4291 TGGCCTTGAATTAGCACATTGGCACCCTCATCATCTTCAAGTCCAATGTCACTGGCTTGGAATCA
1 TGGCCGTGAATCAGCACATTGGCACACTCATCATCTTCAAGTCCAATGTCACTGCCTTGGAATCA
* * * *
4356 GCACGTTGGCACCTTTGTTATCTTTAAGCCTAGTGTCGC
66 GCACATTGGCACCTTTATCATCATTAAGCCTAGTGTCGC
* * *
4395 TGGCCGTGAATCAGCACATTGGCA-ACT-TTCATCTTTAAGTTCAATGTCACTAGCCTT-GAATC
1 TGGCCGTGAATCAGCACATTGGCACACTCATCATCTTCAAGTCCAATGTCACT-GCCTTGGAATC
4457 AGCACATTGGCACCTTTATCATCATTAAG
65 AGCACATTGGCACCTTTATCATCATTAAG
4486 TCTAATGTAG
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
102 51 0.65
103 6 0.08
104 22 0.28
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (104 bp):
TGGCCGTGAATCAGCACATTGGCACACTCATCATCTTCAAGTCCAATGTCACTGCCTTGGAATCA
GCACATTGGCACCTTTATCATCATTAAGCCTAGTGTCGC
Found at i:4507 original size:102 final size:103
Alignment explanation
Indices: 4293--4516 Score: 256
Period size: 102 Copynumber: 2.2 Consensus size: 103
4283 AATGTCATTG
* *
4293 GCCTTGAATTAGCACATTGGCACCCTCATCATCTTCAAGTCCAATGTCACTGGCTTGGAATCAGC
1 GCCTTGAA-TAGCACATTGGCACACTCATCATCTTCAAGTCCAATGTCACTGCCTTGGAATCAGC
* * * * * * **
4358 ACGTTGGCACCTTTGTTATCTTTAAGCCTAGTGTCGCTG
65 ACATTGGCACCTTTATCATCATTAAGCCTAATGTAGCAA
* * * *
4397 GCCGTGAATCAGCACATTGGCA-ACT-TTCATCTTTAAGTTCAATGTCACTAGCCTT-GAATCAG
1 GCCTTGAAT-AGCACATTGGCACACTCATCATCTTCAAGTCCAATGTCACT-GCCTTGGAATCAG
*
4459 CACATTGGCACCTTTATCATCATTAAGTCTAATGTAGCAA
64 CACATTGGCACCTTTATCATCATTAAGCCTAATGTAGCAA
4499 GCCTTGAATATGCACATT
1 GCCTTGAATA-GCACATT
4517 ATCACATTAC
Statistics
Matches: 101, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
101 1 0.01
102 74 0.73
103 7 0.07
104 19 0.19
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (103 bp):
GCCTTGAATAGCACATTGGCACACTCATCATCTTCAAGTCCAATGTCACTGCCTTGGAATCAGCA
CATTGGCACCTTTATCATCATTAAGCCTAATGTAGCAA
Found at i:5592 original size:20 final size:21
Alignment explanation
Indices: 5567--5622 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 21
5557 AAAACCCTTA
5567 AAAGTATCGATACATAATT-C
1 AAAGTATCGATACATAATTGC
*
5587 AAAGTATCGATACA-AGTTGC
1 AAAGTATCGATACATAATTGC
*
5607 AATGTATCGATACATA
1 AAAGTATCGATACATA
5623 TCATTGGGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 3 0.09
20 28 0.88
21 1 0.03
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (21 bp):
AAAGTATCGATACATAATTGC
Found at i:5689 original size:13 final size:13
Alignment explanation
Indices: 5671--5696 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5661 TACACAAAAT
5671 ATGTATCGATACA
1 ATGTATCGATACA
5684 ATGTATCGATACA
1 ATGTATCGATACA
5697 TAAAAAAATT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:5694 original size:32 final size:34
Alignment explanation
Indices: 5653--5717 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 34
5643 TAGCCAAACT
* *
5653 TGTATCGATACA-CAAAATA-TGTATCGATACAA
1 TGTATCGATACATAAAAAAATTGTATCGATACAA
5685 TGTATCGATACATAAAAAAATTGTATCGATACA
1 TGTATCGATACATAAAAAAATTGTATCGATACA
5718 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 12 0.41
33 5 0.17
34 12 0.41
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (34 bp):
TGTATCGATACATAAAAAAATTGTATCGATACAA
Found at i:8004 original size:35 final size:35
Alignment explanation
Indices: 7958--8030 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
7948 ATGAGTTAGT
7958 GAGGCTCATACCAGACATTCAAACATCCATGACAC
1 GAGGCTCATACCAGACATTCAAACATCCATGACAC
7993 GAGGCTCATACCAGACATTCAAACATCCATGACAC
1 GAGGCTCATACCAGACATTCAAACATCCATGACAC
8028 GAG
1 GAG
8031 TTTAGACCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.37, C:0.30, G:0.16, T:0.16
Consensus pattern (35 bp):
GAGGCTCATACCAGACATTCAAACATCCATGACAC
Found at i:11026 original size:20 final size:20
Alignment explanation
Indices: 10975--11029 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
10965 ATTTAACTAG
*
10975 ATGTATCGATACATTAAGGA
1 ATGTATCGATATATTAAGGA
10995 ATGTATCGATATATTGAA-GA
1 ATGTATCGATATATT-AAGGA
*
11015 ATGTATTGATATATT
1 ATGTATCGATATATT
11030 TGGGTCAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.94
21 2 0.06
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.38
Consensus pattern (20 bp):
ATGTATCGATATATTAAGGA
Found at i:11083 original size:52 final size:51
Alignment explanation
Indices: 11014--11133 Score: 159
Period size: 52 Copynumber: 2.3 Consensus size: 51
11004 TATATTGAAG
* * * ** *
11014 AATGTATTGATATATTTGGGTCAAAAACCCAGAATGTATTGATACAACAAAA
1 AATGTATCGATACATTTGGGTCAAAAACCCAAAATGTATCAAGACAA-AAAA
* *
11066 AATGTATCGGTACATTTGGGTCAAAAACCCAAAATGTATCAAGACAATAAA
1 AATGTATCGATACATTTGGGTCAAAAACCCAAAATGTATCAAGACAAAAAA
11117 AATGTATCGATACATTT
1 AATGTATCGATACATTT
11134 CTTTTCCAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
51 19 0.32
52 40 0.68
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.28
Consensus pattern (51 bp):
AATGTATCGATACATTTGGGTCAAAAACCCAAAATGTATCAAGACAAAAAA
Found at i:14665 original size:29 final size:29
Alignment explanation
Indices: 14632--14690 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
14622 AGGCTAGGCA
**
14632 TGATCGGATGCCTATTGAAATTGATATTT
1 TGATCGGATGCCTATTGAAATCAATATTT
14661 TGATCGGATGCCTATTGAAATCAATATTT
1 TGATCGGATGCCTATTGAAATCAATATTT
14690 T
1 T
14691 AAGTTACGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.41
Consensus pattern (29 bp):
TGATCGGATGCCTATTGAAATCAATATTT
Found at i:16385 original size:44 final size:44
Alignment explanation
Indices: 16320--16966 Score: 418
Period size: 44 Copynumber: 14.7 Consensus size: 44
16310 TCATTCCTAC
** * * *
16320 TTGACGTG-TGGTTACCACCCTAGTTAAACTCATTTCATCCCCGT
1 TTGACGTGATGGTT-CTGCCCTAGTCAAACTCCTTTCATCCTCGT
* * * *
16364 TTGACGTGATGGTTTTTCCCTAGTCAAACTCTTTTCATCTTCGT
1 TTGACGTGATGGTTCTGCCCTAGTCAAACTCCTTTCATCCTCGT
* * * * * * *
16408 TTGATGTAATGGTTCTGCCCTTGTTAAACTTCTTTTA-CTATCGT
1 TTGACGTGATGGTTCTGCCCTAGTCAAACTCCTTTCATC-CTCGT
* * * *
16452 TTGACATGATGGTTCTACCCTAGTTAAACTCCTTTCATCC-CTAT
1 TTGACGTGATGGTTCTGCCCTAGTCAAACTCCTTTCATCCTC-GT
* * * * * * *
16496 TTGATGTAATGGTTCTGCCTTGGTTAAACTCCTTTCA-CTATCAT
1 TTGACGTGATGGTTCTGCCCTAGTCAAACTCCTTTCATC-CTCGT
* * * * *
16540 TTGACGTGATGGTTTTACCTTAGTCAAACTCCTTTAATCCTCAT
1 TTGACGTGATGGTTCTGCCCTAGTCAAACTCCTTTCATCCTCGT
* * * **
16584 TTGACGTGATGGTTCTGCCCTAATCAAACTCCTTTC-GCTATTTT
1 TTGACGTGATGGTTCTGCCCTAGTCAAACTCCTTTCATC-CTCGT
* * * *
16628 TTGACATGATCGTTCTGCCTTGGTCAAACTCCTTTCATCCTCGT
1 TTGACGTGATGGTTCTGCCCTAGTCAAACTCCTTTCATCCTCGT
* ** * * * *
16672 TTGAAGTGATGGTT-TATTCTTGGTCAAACTTCTTTCA-CTATCGT
1 TTGACGTGATGGTTCT-GCCCTAGTCAAACTCCTTTCATC-CTCGT
* * * * *
16716 TTAACGTGATGGTTCTGCCTTGGTCAAACTTCTTTCATCC-CTAT
1 TTGACGTGATGGTTCTGCCCTAGTCAAACTCCTTTCATCCTC-GT
* * * * *
16760 TTGACATGATGGTTTTGCCTTAGTCAAAATCCTTTCA-CTATCGT
1 TTGACGTGATGGTTCTGCCCTAGTCAAACTCCTTTCATC-CTCGT
* * *
16804 TTGACGTGATGGTT-TAACCCTAGTCAAACTCTTTTCATCCTCGG
1 TTGACGTGATGGTTCT-GCCCTAGTCAAACTCCTTTCATCCTCGT
* * * * * *
16848 TTGATGTGATGGTTCTACCCTAGTTAAACTTCTTTCA-CTATAGT
1 TTGACGTGATGGTTCTGCCCTAGTCAAACTCCTTTCATC-CTCGT
* * * * * * *
16892 TTGACGTGATGGTTCTACCCTGGTCAAACCCCTTTTAACTATCAT
1 TTGACGTGATGGTTCTGCCCTAGTCAAACTCCTTTCATC-CTCGT
* *
16937 TTAACGTGATGGATCTG-CCTAGTCAAACTC
1 TTGACGTGATGGTTCTGCCCTAGTCAAACTC
16967 TGCTTACTTT
Statistics
Matches: 475, Mismatches: 107, Indels: 42
0.76 0.17 0.07
Matches are distributed among these distances:
43 10 0.02
44 432 0.91
45 33 0.07
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.40
Consensus pattern (44 bp):
TTGACGTGATGGTTCTGCCCTAGTCAAACTCCTTTCATCCTCGT
Found at i:16454 original size:88 final size:89
Alignment explanation
Indices: 16361--16926 Score: 556
Period size: 88 Copynumber: 6.4 Consensus size: 89
16351 ATTTCATCCC
* * * * * *
16361 CGTTTGACGTGATGGTTTTTCCCTAGTCAAACTCTTTTCATCTTCGTTTGATGTAATGGTTCTGC
1 CGTTTGACGTGATGGTTCTACCCTAGTCAAACTCCTTTCATCCTCATTTGATGTGATGGTTCTGC
* * *
16426 CCTT-GTTAAACTTCTTTTACTAT
66 CCTTGGTCAAACTCCTTTCACTAT
* * *
16449 CGTTTGACATGATGGTTCTACCCTAGTTAAACTCCTTTCATCC-CTATTTGATGTAATGGTTCTG
1 CGTTTGACGTGATGGTTCTACCCTAGTCAAACTCCTTTCATCCTC-ATTTGATGTGATGGTTCTG
*
16513 -CCTTGGTTAAACTCCTTTCACTAT
65 CCCTTGGTCAAACTCCTTTCACTAT
* * * * *
16537 CATTTGACGTGATGGTTTTACCTTAGTCAAACTCCTTTAATCCTCATTTGACGTGATGGTTCTGC
1 CGTTTGACGTGATGGTTCTACCCTAGTCAAACTCCTTTCATCCTCATTTGATGTGATGGTTCTGC
** *
16602 CC-TAATCAAACTCCTTTCGCTAT
66 CCTTGGTCAAACTCCTTTCACTAT
** * * * * * * * **
16625 TTTTTGACATGATCGTTCTGCCTTGGTCAAACTCCTTTCATCCTCGTTTGAAGTGATGGTT-TAT
1 CGTTTGACGTGATGGTTCTACCCTAGTCAAACTCCTTTCATCCTCATTTGATGTGATGGTTCTGC
* *
16689 TCTTGGTCAAACTTCTTTCACTAT
66 CCTTGGTCAAACTCCTTTCACTAT
* * * * * ** *
16713 CGTTTAACGTGATGGTTCTGCCTTGGTCAAACTTCTTTCATCC-CTATTTGACATGATGGTTTTG
1 CGTTTGACGTGATGGTTCTACCCTAGTCAAACTCCTTTCATCCTC-ATTTGATGTGATGGTTCTG
* *
16777 -CCTTAGTCAAAATCCTTTCACTAT
65 CCCTTGGTCAAACTCCTTTCACTAT
* ** *
16801 CGTTTGACGTGATGGTT-TAACCCTAGTCAAACTCTTTTCATCCTCGGTTGATGTGATGGTTCTA
1 CGTTTGACGTGATGGTTCT-ACCCTAGTCAAACTCCTTTCATCCTCATTTGATGTGATGGTTCTG
* * *
16865 CCC-TAGTTAAACTTCTTTCACTAT
65 CCCTTGGTCAAACTCCTTTCACTAT
* * *
16889 AGTTTGACGTGATGGTTCTACCCTGGTCAAACCCCTTT
1 CGTTTGACGTGATGGTTCTACCCTAGTCAAACTCCTTT
16927 TAACTATCAT
Statistics
Matches: 396, Mismatches: 71, Indels: 22
0.81 0.15 0.04
Matches are distributed among these distances:
87 9 0.02
88 379 0.96
89 8 0.02
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (89 bp):
CGTTTGACGTGATGGTTCTACCCTAGTCAAACTCCTTTCATCCTCATTTGATGTGATGGTTCTGC
CCTTGGTCAAACTCCTTTCACTAT
Found at i:16491 original size:132 final size:132
Alignment explanation
Indices: 16320--16948 Score: 542
Period size: 132 Copynumber: 4.8 Consensus size: 132
16310 TCATTCCTAC
* * ** * * *
16320 TTGACGTG-TGGTTACCACCCTAGTTAAACTCATTTCATCCCCGTTTGACGTGATGGTTTTTCCC
1 TTGACGTGATGGTT-CTACCCTAGTTAAACTCCTTTCATCCCTATTTGACGTGATGGTTCTGCCT
* * * * * *
16384 TAGTCAAACTCTTTTCATCT-TCGTTTGATGTAATGGTTCTGCCCTT-GTTAAACTTCTTTTACT
65 TGGTCAAACTCCTTTCA-CTATCGTTTGACGTGATGGTT-TACCCTTAGTCAAAC-TCTTTTACT
16447 -ATCGT
127 CATCGT
* * *
16452 TTGACATGATGGTTCTACCCTAGTTAAACTCCTTTCATCCCTATTTGATGTAATGGTTCTGCCTT
1 TTGACGTGATGGTTCTACCCTAGTTAAACTCCTTTCATCCCTATTTGACGTGATGGTTCTGCCTT
* * * * *
16517 GGTTAAACTCCTTTCACTATCATTTGACGTGATGGTTTTA-CCTTAGTCAAACTCCTTTAATCCT
66 GGTCAAACTCCTTTCACTATCGTTTGACGTGATGG-TTTACCCTTAGTCAAACTCTTTTACTCAT
*
16581 CAT
130 CGT
* * * * ** * * *
16584 TTGACGTGATGGTTCTGCCCTAATCAAACTCCTTTC-GCTATTTTTTGACATGATCGTTCTGCCT
1 TTGACGTGATGGTTCTACCCTAGTTAAACTCCTTTCATC-CCTATTTGACGTGATGGTTCTGCCT
* * ** * *
16648 TGGTCAAACTCCTTTCA-TCCTCGTTTGAAGTGATGGTTTATTCTTGGTCAAACTTCTTTCACT-
65 TGGTCAAACTCCTTTCACT-ATCGTTTGACGTGATGGTTTACCCTTAGTCAAAC-TCTTTTACTC
16711 ATCGT
128 ATCGT
* * * * * * * *
16716 TTAACGTGATGGTTCTGCCTTGGTCAAACTTCTTTCATCCCTATTTGACATGATGGTTTTGCCTT
1 TTGACGTGATGGTTCTACCCTAGTTAAACTCCTTTCATCCCTATTTGACGTGATGGTTCTGCCTT
* * *
16781 AGTCAAAATCCTTTCACTATCGTTTGACGTGATGGTTTAACCC-TAGTCAAACTCTTTT-CATCC
66 GGTCAAACTCCTTTCACTATCGTTTGACGTGATGGTTT-ACCCTTAGTCAAACTCTTTTAC-TCA
*
16844 TCGG
129 TCGT
* * ** * *
16848 TTGATGTGATGGTTCTACCCTAGTTAAACTTCTTTCA-CTATAGTTTGACGTGATGGTTCTACCC
1 TTGACGTGATGGTTCTACCCTAGTTAAACTCCTTTCATCCCTA-TTTGACGTGATGGTTCTGCCT
* * * *
16912 TGGTCAAACCCCTTTTAACTATCATTTAACGTGATGG
65 TGGTCAAACTCC-TTTCACTATCGTTTGACGTGATGG
16949 ATCTGCCTAG
Statistics
Matches: 397, Mismatches: 84, Indels: 31
0.78 0.16 0.06
Matches are distributed among these distances:
130 1 0.00
131 28 0.07
132 330 0.83
133 38 0.10
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (132 bp):
TTGACGTGATGGTTCTACCCTAGTTAAACTCCTTTCATCCCTATTTGACGTGATGGTTCTGCCTT
GGTCAAACTCCTTTCACTATCGTTTGACGTGATGGTTTACCCTTAGTCAAACTCTTTTACTCATC
GT
Found at i:16636 original size:176 final size:176
Alignment explanation
Indices: 16363--16966 Score: 637
Period size: 176 Copynumber: 3.4 Consensus size: 176
16353 TTCATCCCCG
* * * * * * * *
16363 TTTGACGTGATGGTTTTTCCCTAGTCAAACTCTTTTCATCTTCGTTTGATGTAATGGTTCTGCCC
1 TTTGACGTGATGGTTCTACCCTAGTCAAACTCCTTTAATCCTCATTTGACGTGATGGTTCTGCCC
* * * * *
16428 TTGTTAAACTTCTTTTACTATCGTTTGACATGATGGTTCTACCCTAGTTAAACTCCTTTCATCC-
66 TAGTCAAACTCCTTTCACTATCGTTTGACATGATGGTTCTACCCTAGTCAAACTCCTTTCATCCT
* * * *
16492 CTATTTGATGTAATGGTTCTGCCTTGGTTAAACTCCTTTCACTATCA
131 C-GTTTGATGTGATGGTTCTACCTTGGTTAAACTTCTTTCACTATCA
* *
16539 TTTGACGTGATGGTTTTACCTTAGTCAAACTCCTTTAATCCTCATTTGACGTGATGGTTCTGCCC
1 TTTGACGTGATGGTTCTACCCTAGTCAAACTCCTTTAATCCTCATTTGACGTGATGGTTCTGCCC
* * ** * * * *
16604 TAATCAAACTCCTTTCGCTATTTTTTGACATGATCGTTCTGCCTTGGTCAAACTCCTTTCATCCT
66 TAGTCAAACTCCTTTCACTATCGTTTGACATGATGGTTCTACCCTAGTCAAACTCCTTTCATCCT
* * * *
16669 CGTTTGAAGTGATGGTT-TATTCTTGGTCAAACTTCTTTCACTATCG
131 CGTTTGATGTGATGGTTCTA-CCTTGGTTAAACTTCTTTCACTATCA
* * * * * * * *
16715 TTTAACGTGATGGTTCTGCCTTGGTCAAACTTCTTTCATCC-CTATTTGACATGATGGTTTTGCC
1 TTTGACGTGATGGTTCTACCCTAGTCAAACTCCTTTAATCCTC-ATTTGACGTGATGGTTCTGCC
* * * *
16779 TTAGTCAAAATCCTTTCACTATCGTTTGACGTGATGGTT-TAACCCTAGTCAAACTCTTTTCATC
65 CTAGTCAAACTCCTTTCACTATCGTTTGACATGATGGTTCT-ACCCTAGTCAAACTCCTTTCATC
* * *
16843 CTCGGTTGATGTGATGGTTCTACCCTAGTTAAACTTCTTTCACTAT-A
129 CTCGTTTGATGTGATGGTTCTACCTTGGTTAAACTTCTTTCACTATCA
* * * * *
16890 GTTTGACGTGATGGTTCTACCCTGGTCAAACCCCTTTTAA-CTATCATTTAACGTGATGGATCTG
1 -TTTGACGTGATGGTTCTACCCTAGTCAAACTCC-TTTAATC-CTCATTTGACGTGATGGTTCTG
16954 -CCTAGTCAAACTC
63 CCCTAGTCAAACTC
16967 TGCTTACTTT
Statistics
Matches: 350, Mismatches: 69, Indels: 18
0.80 0.16 0.04
Matches are distributed among these distances:
175 3 0.01
176 324 0.93
177 22 0.06
178 1 0.00
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (176 bp):
TTTGACGTGATGGTTCTACCCTAGTCAAACTCCTTTAATCCTCATTTGACGTGATGGTTCTGCCC
TAGTCAAACTCCTTTCACTATCGTTTGACATGATGGTTCTACCCTAGTCAAACTCCTTTCATCCT
CGTTTGATGTGATGGTTCTACCTTGGTTAAACTTCTTTCACTATCA
Found at i:17218 original size:42 final size:42
Alignment explanation
Indices: 17082--17228 Score: 138
Period size: 43 Copynumber: 3.5 Consensus size: 42
17072 CAGGTAGCTT
* * *
17082 TTTATCCTTTGTTGACTTGTTGATTCAACCC-AGTCAACTTC
1 TTTATCCTTTGTTTACTTGTCGATTCAACCCTAGTCAAATTC
* * * ** *
17123 TTTATCCTTTATTTACTTGTCAACGT-AGTCCTAGAT-AAATCC
1 TTTATCCTTTGTTTACTTGTCGA-TTCAACCCTAG-TCAAATTC
* * *
17165 TTTTATCCTTTGTTAACTTATCGATTCAACCCTAGTCAATTTC
1 -TTTATCCTTTGTTTACTTGTCGATTCAACCCTAGTCAAATTC
17208 TTTATCCTTTGTTTACTTGTC
1 TTTATCCTTTGTTTACTTGTC
17229 AACTTTGTCT
Statistics
Matches: 80, Mismatches: 20, Indels: 11
0.72 0.18 0.10
Matches are distributed among these distances:
41 22 0.28
42 28 0.35
43 30 0.38
ACGTcount: A:0.21, C:0.22, G:0.10, T:0.47
Consensus pattern (42 bp):
TTTATCCTTTGTTTACTTGTCGATTCAACCCTAGTCAAATTC
Found at i:17278 original size:85 final size:84
Alignment explanation
Indices: 17081--17278 Score: 254
Period size: 85 Copynumber: 2.3 Consensus size: 84
17071 TCAGGTAGCT
*
17081 TTTTATCCTTTGTTGACTTGTTGATTCAACCCAGTCAACTTCTTTATCCTTTATTTACTTGTCAA
1 TTTTATCCTTTGTTGACTTATTGATTCAACCCAGTCAACTTCTTTATCCTTTATTTACTTGTCAA
17146 CGTAGTCCTAGATAAATCC
66 CGTAGTCCTAGATAAATCC
* * * *
17165 TTTTATCCTTTGTTAACTTATCGATTCAACCCTAGTCAATTTCTTTATCCTTTGTTTACTTGTCA
1 TTTTATCCTTTGTTGACTTATTGATTCAACCC-AGTCAACTTCTTTATCCTTTATTTACTTGTCA
* * * *
17230 ACTTTGT-CTCGGGTAAATCC
65 ACGTAGTCCT-AGATAAATCC
* * * *
17250 TTTTATCTTTTATTGACTTTTTGGTTCAA
1 TTTTATCCTTTGTTGACTTATTGATTCAA
17279 TCTCGGTCTA
Statistics
Matches: 97, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
84 31 0.32
85 66 0.68
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.48
Consensus pattern (84 bp):
TTTTATCCTTTGTTGACTTATTGATTCAACCCAGTCAACTTCTTTATCCTTTATTTACTTGTCAA
CGTAGTCCTAGATAAATCC
Found at i:17297 original size:85 final size:83
Alignment explanation
Indices: 17081--17308 Score: 242
Period size: 85 Copynumber: 2.7 Consensus size: 83
17071 TCAGGTAGCT
* * *
17081 TTTTATCCTTTGTTGACTTGTTGATTCAACCCAGTCAACTTCTTTATCCTTTATTTACTTGTCAA
1 TTTTATCCTTTGTTGACTTATTGATTCAACCCAGTC-ACTTTTTTATCCTTTGTTTACTTGTCAA
17146 CGTAGTCCTAGATAAATCC
65 CGTAGTCCTAGATAAATCC
* * *
17165 TTTTATCCTTTGTTAACTTATCGATTCAACCCTAGTCAATTTCTTTATCCTTTGTTTACTTGTCA
1 TTTTATCCTTTGTTGACTTATTGATTCAACCC-AGTCACTTT-TTTATCCTTTGTTTACTTGTCA
* * * *
17230 ACTTTGT-CTCGGGTAAATCC
64 ACGTAGTCCT-AGATAAATCC
* * * * * * *
17250 TTTTATCTTTTATTGACTTTTTGGTTCAATCTCGGTCTACTTTTTTATCCATTGTTTAC
1 TTTTATCCTTTGTTGACTTATTGATTCAA-CCCAGTC-ACTTTTTTATCCTTTGTTTAC
17309 CTACTGGCTT
Statistics
Matches: 119, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
84 34 0.29
85 79 0.66
86 6 0.05
ACGTcount: A:0.20, C:0.21, G:0.11, T:0.49
Consensus pattern (83 bp):
TTTTATCCTTTGTTGACTTATTGATTCAACCCAGTCACTTTTTTATCCTTTGTTTACTTGTCAAC
GTAGTCCTAGATAAATCC
Found at i:17836 original size:19 final size:20
Alignment explanation
Indices: 17812--17863 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
17802 CTTAACTGTT
17812 TGTATCGATACAT-A-CAAGA
1 TGTATCGATACATGACCAA-A
*
17831 TGTATCGATACGTGACCAAA
1 TGTATCGATACATGACCAAA
17851 TGTATCGATACAT
1 TGTATCGATACAT
17864 TGGCTTGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 12 0.41
20 14 0.48
21 3 0.10
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (20 bp):
TGTATCGATACATGACCAAA
Found at i:26400 original size:13 final size:13
Alignment explanation
Indices: 26382--26406 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26372 ATAATGCACA
26382 GTATCGATACATT
1 GTATCGATACATT
26395 GTATCGATACAT
1 GTATCGATACAT
26407 GACCACTGTA
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:26519 original size:20 final size:19
Alignment explanation
Indices: 26476--26527 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
26466 CTTAACTATT
*
26476 TGTATTGATACATACAAGA
1 TGTATCGATACATACAAGA
26495 TGTATCGATACATGACCAA-A
1 TGTATCGATACAT-A-CAAGA
*
26515 TGTATCTATACAT
1 TGTATCGATACAT
26528 TGGCTTGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 12 0.41
20 14 0.48
21 3 0.10
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (19 bp):
TGTATCGATACATACAAGA
Found at i:28510 original size:165 final size:167
Alignment explanation
Indices: 28208--28558 Score: 412
Period size: 166 Copynumber: 2.1 Consensus size: 167
28198 ATTTCAAACA
* *
28208 TTAAAATTCTTTAAATATTATCATTTAATAACCATTAAATCAGTTTTGAAAAATTCTTTTTATTT
1 TTAAAATTCATCAAATATTATCATTTAATAACCATTAAATCAGTTTTGAAAAATTCTTTTTATTT
* * * * *
28273 TATGAGTTATTGATTTTCTTTTAGAATTTCTTCTTATTTTCGAAATACGGAGTTTTCTTCTCCAT
66 TATAAGTTATTGATTTTCTTTTAGAATATCTTCCTATTTTCGAAAAACGGAGTTTTCTACTCCAT
* *
28338 AAATA-TTTTGAGAGGATTCTGATCGATTTTAAATTT
131 AAATATTTTTGAGAGGATTCTCATCGATTTAAAATTT
* *
28374 TTAAAATTCATCAAATATTATCATTTGAT-TCACATTAAATCAGTTTT-AAAAATT-TTATTTAT
1 TTAAAATTCATCAAATATTATCATTTAATAAC-CATTAAATCAGTTTTGAAAAATTCTT-TTTAT
* *
28436 TTTCATAAGTT-TTGAATTTTTTTCTTTA-AA-ATC-TCCTATTTTTGAAAAACGGAGTTTTCTA
64 TTT-ATAAGTTATTG-A-TTTTCT-TTTAGAATATCTTCCTATTTTCGAAAAACGGAGTTTTCTA
* * * * *
28497 CTTCATAAATATTTTTGGGAGGATTTTCTTCGGTTTAAAATTT
125 CTCCATAAATATTTTTGAGAGGATTCTCATCGATTTAAAATTT
* *
28540 TTAAAACTCATCTAATATT
1 TTAAAATTCATCAAATATT
28559 GTTATTAAAC
Statistics
Matches: 158, Mismatches: 20, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
164 2 0.01
165 53 0.34
166 92 0.58
167 7 0.04
168 4 0.03
ACGTcount: A:0.32, C:0.11, G:0.09, T:0.49
Consensus pattern (167 bp):
TTAAAATTCATCAAATATTATCATTTAATAACCATTAAATCAGTTTTGAAAAATTCTTTTTATTT
TATAAGTTATTGATTTTCTTTTAGAATATCTTCCTATTTTCGAAAAACGGAGTTTTCTACTCCAT
AAATATTTTTGAGAGGATTCTCATCGATTTAAAATTT
Found at i:28934 original size:10 final size:10
Alignment explanation
Indices: 28904--28934 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
28894 CATAAATATC
28904 ATGAAAAAAA
1 ATGAAAAAAA
*
28914 ATGAATAAAA
1 ATGAAAAAAA
28924 ATGAAAAAAA
1 ATGAAAAAAA
28934 A
1 A
28935 ATCATGGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (10 bp):
ATGAAAAAAA
Found at i:30753 original size:310 final size:310
Alignment explanation
Indices: 30176--30779 Score: 694
Period size: 310 Copynumber: 1.9 Consensus size: 310
30166 GGGTTACCGG
* * * *
30176 GATACTTTTATGTCGAAGGTATACCCCTATGGGCATTTTCATAATTTTTCAGAATCGAGTCCTAG
1 GATACTTCTAAGTCGAAGGTATACCCCTATGGGCATTTTCATAATTTTTCAAAATCAAGTCCTAG
* * ** *
30241 TTGTCACTGGTTTGCTTTTATGTTGAAAGTAGGTATTTAGGATAGGTTCATCCCATTTATAATCC
66 TTGTCACGGGTTCGCTTTTATGTCCAAAGTAGGTATTTAGGATAAGTTCATCCCATTTATAATCC
** * * *
30306 TTTTTAAGTTTTTTAGGGGTATTAGGCACTTCTACATCGAAAATATCACCTAGGGATATTTTTTG
131 TTTTTAAGTCCTTTAGGGGTATCAGGCACTTCTACATCGAAAATATCACCTAGGGACATTTTTCG
* * * * *
30371 TAATTTTCTAGAGTTGAGTCTTAGGTTGTCACCAGGTTTGCATTTATGCCGAAGGTGGGGATTTT
196 TAATTTTCTAGAATCGAGTCTTAGGTTGTCACCAGGTTAGCATTTATGCCAAAAGTGGGGATTTT
30436 AGATAGGTTCATCCCATCTATAATCCTTTTTAAGTCCTCTAAGGGTATCA
261 AGATAGGTTCATCCCATCTATAATCCTTTTTAAGTCCTCTAAGGGTATCA
* *
30486 GATACTTCTAAGTCGAAGGTAT-CTCCTATGGGTATTTTCATAA-TTTTCTAAAA-CTAAGTCCT
1 GATACTTCTAAGTCGAAGGTATACCCCTATGGGCATTTTCATAATTTTTC-AAAATC-AAGTCCT
* *
30548 AGGTTGTCACCGGGTTCGCTTTTATG-CCAAATGTGGGTATTTAGGATAAGTTCATTCCAGCCTT
64 A-GTTGTCA-CGGGTTCGCTTTTATGTCCAAA-GTAGGTATTTAGGATAAGTTCA-TCC--CATT
* * * **
30612 T-T-A-CCTTTTTAAGTCCTTTA-GGGTGTCGGGCACTTTTACATCGAAGGTATC-CCTTATGGG
123 TATAATCCTTTTTAAGTCCTTTAGGGGTATCAGGCACTTCTACATCGAAAATATCACC-TA-GGG
* * ** *
30672 -CA-TTTTCGTAATTTTTTTATAATCGAGTCTTAGGTTGTCA-TTGAGTTAGCTTTTATGCCAAA
186 ACATTTTTCGTAA-TTTTCTAGAATCGAGTCTTAGGTTGTCACCAG-GTTAGCATTTATGCCAAA
*
30734 AGTGGGTA-TTTAGGATAGGTTCATCCCATCTATAATCCTTTTTAAG
249 AGTGGGGATTTTA-GATAGGTTCATCCCATCTATAATCCTTTTTAAG
30780 CCTTTTAGGA
Statistics
Matches: 247, Mismatches: 34, Indels: 26
0.80 0.11 0.08
Matches are distributed among these distances:
308 6 0.02
309 44 0.18
310 136 0.55
311 52 0.21
312 4 0.02
313 1 0.00
314 4 0.02
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (310 bp):
GATACTTCTAAGTCGAAGGTATACCCCTATGGGCATTTTCATAATTTTTCAAAATCAAGTCCTAG
TTGTCACGGGTTCGCTTTTATGTCCAAAGTAGGTATTTAGGATAAGTTCATCCCATTTATAATCC
TTTTTAAGTCCTTTAGGGGTATCAGGCACTTCTACATCGAAAATATCACCTAGGGACATTTTTCG
TAATTTTCTAGAATCGAGTCTTAGGTTGTCACCAGGTTAGCATTTATGCCAAAAGTGGGGATTTT
AGATAGGTTCATCCCATCTATAATCCTTTTTAAGTCCTCTAAGGGTATCA
Found at i:30787 original size:155 final size:155
Alignment explanation
Indices: 30188--30788 Score: 580
Period size: 155 Copynumber: 3.9 Consensus size: 155
30178 TACTTTTATG
* *
30188 TCGAAGGTATACCCCTATGGGCATTTTCATAATTTT-TCAGAATCGAGTCCTA-GTTGTCACTG-
1 TCGAAGGTAT-CACCTATGGGCATTTTCATAATTTTCT-AGAATCGAGTCCTAGGTTGTCACCGA
*** * *
30250 GTTTGCTTTTATGTTGAAAGTAGGTATTTAGGATAGGTTCATCCCATTTATAATCCTTTTTAAGT
64 GTTTGCTTTTATGCCAAAAGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCCTTTTTAAGT
* *
30315 -TTTTTAGGGGTATTAGGCACTTCTACA
129 CCTTTTA-GGGTATCAGGCACTTCTACA
** * ** * * *
30342 TCGAAAATATCACCTA-GGGATATTTTTTGTAATTTTCTAGAGTTGAGTCTTAGGTTGTCACC-A
1 TCGAAGGTATCACCTATGGG-CA-TTTTCATAATTTTCTAGAATCGAGTCCTAGGTTGTCACCGA
* * * *
30405 GGTTTGCATTTATGCCGAAGGTGGGGATTTTA-GATAGGTTCATCCCATCTATAATCCTTTTTAA
64 -GTTTGCTTTTATGCCAAAAGTGGGTA-TTTAGGATAGGTTCATCCCATCTATAATCCTTTTTAA
* * **
30469 GTCCTCTAAGGGTATCAGATACTTCTA-A
127 GTCCTTTTAGGGTATCAGGCACTTCTACA
* * * * *
30497 GTCGAAGGTATCTCCTATGGGTATTTTCATAATTTTCTA-AAACTAAGTCCTAGGTTGTCACCGG
1 -TCGAAGGTATCACCTATGGGCATTTTCATAATTTTCTAGAATC-GAGTCCTAGGTTGTCACCGA
* * * * * * *
30561 GTTCGCTTTTATGCCAAATGTGGGTATTTAGGATAAGTTCATTCCAGCCTTTTA-CCTTTTTAAG
64 GTTTGCTTTTATGCCAAAAGTGGGTATTTAGGATAGGTTCATCCCA-TCTATAATCCTTTTTAAG
* * *
30625 TCC-TTTAGGGTGTCGGGCACTTTTACA
128 TCCTTTTAGGGTATCAGGCACTTCTACA
* * * * **
30652 TCGAAGGTATC-CCTTATGGGCATTTTCGTAATTTTTTTATAATCGAGTCTTAGGTTGTCATTGA
1 TCGAAGGTATCACC-TATGGGCATTTTCATAA-TTTTCTAGAATCGAGTCCTAGGTTGTCACCGA
*
30716 GTTAGCTTTTATGCCAAAAGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCCTTTTTAAG-
64 GTTTGCTTTTATGCCAAAAGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCCTTTTTAAGT
30780 CCTTTTAGG
129 CCTTTTAGG
30789 ATCAACGGGC
Statistics
Matches: 360, Mismatches: 67, Indels: 39
0.77 0.14 0.08
Matches are distributed among these distances:
152 3 0.01
153 8 0.02
154 82 0.23
155 167 0.46
156 90 0.25
157 10 0.03
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (155 bp):
TCGAAGGTATCACCTATGGGCATTTTCATAATTTTCTAGAATCGAGTCCTAGGTTGTCACCGAGT
TTGCTTTTATGCCAAAAGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCCTTTTTAAGTCC
TTTTAGGGTATCAGGCACTTCTACA
Found at i:33948 original size:20 final size:20
Alignment explanation
Indices: 33923--33973 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
33913 AATTGCCTAC
* * *
33923 ATGTATCGATATATTGAAGA
1 ATGTATCGATAAAATGAAAA
*
33943 ATGTATCAATAAAATGAAAA
1 ATGTATCGATAAAATGAAAA
33963 ATGTATCGATA
1 ATGTATCGATA
33974 CATTTAGGTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.47, C:0.06, G:0.16, T:0.31
Consensus pattern (20 bp):
ATGTATCGATAAAATGAAAA
Found at i:34134 original size:21 final size:20
Alignment explanation
Indices: 34084--34137 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
34074 CATTTCAGAC
*
34084 ATGTATCAATACATTCACTT
1 ATGTATCGATACATTCACTT
*
34104 ATGAATCGATACATTCACTT
1 ATGTATCGATACATTCACTT
34124 ATTGTATCGATACA
1 A-TGTATCGATACA
34138 AATTGTAGAA
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:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTCACTT
Found at i:43466 original size:76 final size:75
Alignment explanation
Indices: 43340--43487 Score: 260
Period size: 76 Copynumber: 2.0 Consensus size: 75
43330 TGATTTCACT
*
43340 AACTCATAAATAAAATTTAACTCAAGGAAATTTAGAATTTTCAAAGGTTTCAATTATTGCAAATT
1 AACTCATAAATAAAATTTAACTCAAGGAAATTTAGAATTTTCAAAGGTTTCAA-TATAGCAAATT
43405 CAAAAAAAAAC
65 CAAAAAAAAAC
* *
43416 AACTCATAAATAAAATTTAACTTAAGGAAATTTGGAATTTTCAAAGGTTTCAATATAGCAAATTC
1 AACTCATAAATAAAATTTAACTCAAGGAAATTTAGAATTTTCAAAGGTTTCAATATAGCAAATTC
43481 AAAAAAA
66 AAAAAAA
43488 CTAACCGAAC
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
75 18 0.26
76 51 0.74
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (75 bp):
AACTCATAAATAAAATTTAACTCAAGGAAATTTAGAATTTTCAAAGGTTTCAATATAGCAAATTC
AAAAAAAAAC
Found at i:51633 original size:65 final size:65
Alignment explanation
Indices: 51381--51669 Score: 292
Period size: 65 Copynumber: 4.4 Consensus size: 65
51371 CAAACATTAG
* * * * * *
51381 ACTTAGGTTTTATCCTAGTCACCCTTAGTTGACCATTATGGTTTTACCCTAGTTAACCCTTTTCG
1 ACTTAGGTTTTGTCCTAGTCACCCTTAGTTGACTATTATGGTTTTACCTTGGTCAACCCTTTTCA
* * ** * * * *
51446 ACTTTGGCTTCATCCTAGTCACCCTTAATTTACTATTATAGTTTCACCTTGGTCAACCCTTTT-A
1 ACTTAGGTTTTGTCCTAGTCACCCTTAGTTGACTATTATGGTTTTACCTTGGTCAACCCTTTTCA
* * * * * *
51510 GACTTAGGTTTTGTCCCAATCACCTTTAGTTGACTATTATGATTTTGCCTTGGTCAACTCTTTTC
1 -ACTTAGGTTTTGTCCTAGTCACCCTTAGTTGACTATTATGGTTTTACCTTGGTCAACCCTTTTC
51575 A
65 A
* * * * **
51576 ACTTAAGTTTTGTCCTATTCACCTTTAGTTGACTATTATGGTTTTGCCTTGGTCAACTTTTTTCA
1 ACTTAGGTTTTGTCCTAGTCACCCTTAGTTGACTATTATGGTTTTACCTTGGTCAACCCTTTTCA
* * * *
51641 ACTTGGGTTTTGCCCTATTCACCATTAGT
1 ACTTAGGTTTTGTCCTAGTCACCCTTAGT
51670 CAGTTCATAT
Statistics
Matches: 187, Mismatches: 35, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
65 186 0.99
66 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.44
Consensus pattern (65 bp):
ACTTAGGTTTTGTCCTAGTCACCCTTAGTTGACTATTATGGTTTTACCTTGGTCAACCCTTTTCA
Found at i:51681 original size:65 final size:65
Alignment explanation
Indices: 51477--51708 Score: 222
Period size: 65 Copynumber: 3.6 Consensus size: 65
51467 CCCTTAATTT
* ** * * * *
51477 ACTATTATAGTTTCACCTTGGTCAACCCTTTT-AGACTTAGGTTTTGTCCC-AATCACCTTTAGT
1 ACTATTATGGTTTTGCCTTGGTCAACTCTTTTCA-ACTTAAGTTTTG-CCCTATTCACCATTAGT
*
51540 TG
64 AG
* * * *
51542 ACTATTATGATTTTGCCTTGGTCAACTCTTTTCAACTTAAGTTTTGTCCTATTCACCTTTAGTTG
1 ACTATTATGGTTTTGCCTTGGTCAACTCTTTTCAACTTAAGTTTTGCCCTATTCACCATTAGTAG
* **
51607 ACTATTATGGTTTTGCCTTGGTCAACTTTTTTCAACTTGGGTTTTGCCCTATTCACCATTAGTCA
1 ACTATTATGGTTTTGCCTTGGTCAACTCTTTTCAACTTAAGTTTTGCCCTATTCACCATTAGT-A
51672 G
65 G
* **
51673 -TTCA-TATGGTTTTGTCC-TGACCAACTCTTTTCAACT
1 ACT-ATTATGGTTTTG-CCTTGGTCAACTCTTTTCAACT
51709 AAGGTTCTAC
Statistics
Matches: 143, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
64 2 0.01
65 136 0.95
66 5 0.03
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (65 bp):
ACTATTATGGTTTTGCCTTGGTCAACTCTTTTCAACTTAAGTTTTGCCCTATTCACCATTAGTAG
Found at i:55273 original size:19 final size:18
Alignment explanation
Indices: 55249--55346 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
55239 TAGCTTACAT
55249 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
55268 TGTATCGATAC--A-TTA
1 TGTATCGATACAAACTTA
55283 --TATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
55300 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
55313 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
55333 TGTATCGATACAAA
1 TGTATCGATACAAA
55347 TCGTTGAAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 20 0.30
14 1 0.02
15 3 0.05
16 4 0.06
17 3 0.05
19 22 0.33
20 13 0.20
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:55287 original size:32 final size:32
Alignment explanation
Indices: 55244--55344 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
55234 GGTAGTAGCT
*
55244 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
*
55276 TACATTATATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
55308 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
55341 TACA
1 TACA
55345 AATCGTTGAA
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 50 0.77
33 15 0.23
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.35
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:56209 original size:43 final size:43
Alignment explanation
Indices: 56140--56583 Score: 440
Period size: 43 Copynumber: 9.8 Consensus size: 43
56130 TAGGGATGTT
* * * * * *
56140 AAAGATGCCAATACGCTGATTAAAGGCCAACGATATTGGGCTG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTG
* *
56183 AAAGGTGCCAATATGCTAATTCAAGGCCAGCTACATTGGACTTAAAG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T---G
*
56230 ATAAAGGTGCCAATATACTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 --AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T---G
*
56279 ATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTG
* * **
56324 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTATACTTAAAG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T---G
* *
56371 ATGAAGGTGCCAATATGCTGATTCAAGGCCATCTATATTGGACTT
1 A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTG
* *
56416 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTG
* * * *
56459 AAAGGTGCTAATGTGCTGATTCAAGGCCAGCTACATCGGACTTAAAG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T---G
*
56506 ATGAAGGTGCCAATATGCTGATTC-AGGCCAGCTATATTGGACTT
1 A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTG
*
56550 AAAGGTGCCAATGCTGCTGATTCAAGGCCAGCTA
1 AAAGGTGCCAAT-ATGCTGATTCAAGGCCAGCTA
56584 CAGTGGGGTT
Statistics
Matches: 343, Mismatches: 36, Indels: 43
0.81 0.09 0.10
Matches are distributed among these distances:
42 11 0.03
43 156 0.45
44 14 0.04
45 2 0.01
47 5 0.01
48 18 0.05
49 137 0.40
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.26
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTG
Found at i:56255 original size:49 final size:49
Alignment explanation
Indices: 56183--56583 Score: 465
Period size: 49 Copynumber: 8.7 Consensus size: 49
56173 TATTGGGCTG
* *
56183 AAAGGTGCCAATATGCTAATTCAAGGCCAGCTACATTGGACTTAAAGAT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT
*
56232 AAAGGTGCCAATATACTGATTCAAGGCCAGCTATATTGGACTTAAAGAT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT
*
56281 GAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT
* * **
56324 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTATACTTAAAGAT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT
* *
56373 GAAGGTGCCAATATGCTGATTCAAGGCCATCTATATTGGAC-T-----T
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT
*
56416 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGAC-T-----T
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT
* * * *
56459 AAAGGTGCTAATGTGCTGATTCAAGGCCAGCTACATCGGACTTAAAGAT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT
*
56508 GAAGGTGCCAATATGCTGATTC-AGGCCAGCTATATTGGAC-T-----T
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT
*
56550 AAAGGTGCCAATGCTGCTGATTCAAGGCCAGCTA
1 AAAGGTGCCAAT-ATGCTGATTCAAGGCCAGCTA
56584 CAGTGGGGTT
Statistics
Matches: 309, Mismatches: 29, Indels: 33
0.83 0.08 0.09
Matches are distributed among these distances:
42 12 0.04
43 125 0.40
44 12 0.04
47 1 0.00
48 18 0.06
49 141 0.46
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (49 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT
Found at i:56269 original size:92 final size:86
Alignment explanation
Indices: 56138--56585 Score: 466
Period size: 92 Copynumber: 4.9 Consensus size: 86
56128 CTTAGGGATG
* * * * * * *
56138 TTAAAGATGCCAATACGCTGATTAAAGGCCAACGATATTGGGCTGAAAGGTGCCAATATGCTAAT
1 TTAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTGAAAGGTGCCAATATGCTGAT
56203 TCAAGGCCAGCTACATTGGAC
66 TCAAGGCCAGCTACATTGGAC
*
56224 TTAAAGATAAAGGTGCCAATATACTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 -T-----TAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T---GA--AAGGTGC
*
56289 CAATATGCTGATTCAAGGCCAGCTATATTGGAC
54 CAATATGCTGATTCAAGGCCAGCTACATTGGAC
* * **
56322 TTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTATACTTAAAGATGAAGGTGCCAATAT
1 TTAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T---GA--AAGGTGCCAATAT
* *
56387 GCTGATTCAAGGCCATCTATATTGGAC
60 GCTGATTCAAGGCCAGCTACATTGGAC
* * * *
56414 TTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCTAATGTGCTGAT
1 TTAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTGAAAGGTGCCAATATGCTGAT
*
56479 TCAAGGCCAGCTACATCGGAC
66 TCAAGGCCAGCTACATTGGAC
* *
56500 TTAAAGATGAAGGTGCCAATATGCTGATTC-AGGCCAGCTATATTGGACTTAAAGGTGCCAATGC
1 TT----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTGAAAGGTGCCAAT-A
56564 TGCTGATTCAAGGCCAGCTACA
59 TGCTGATTCAAGGCCAGCTACA
56586 GTGGGGTTGT
Statistics
Matches: 316, Mismatches: 27, Indels: 31
0.84 0.07 0.08
Matches are distributed among these distances:
86 37 0.12
87 1 0.00
88 1 0.00
90 1 0.00
91 32 0.10
92 202 0.64
93 1 0.00
96 2 0.01
97 1 0.00
98 38 0.12
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (86 bp):
TTAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTGAAAGGTGCCAATATGCTGAT
TCAAGGCCAGCTACATTGGAC
Found at i:56484 original size:21 final size:21
Alignment explanation
Indices: 56417--56484 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
56407 ATTGGACTTA
*
56417 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCTAATGTGCTGATTC
* *
56438 AAGGCCAGCTATAT-TG--GACTTA
1 AAGG--TGCTA-ATGTGCTGA-TTC
56460 AAGGTGCTAATGTGCTGATTC
1 AAGGTGCTAATGTGCTGATTC
56481 AAGG
1 AAGG
56485 CCAGCTACAT
Statistics
Matches: 35, Mismatches: 5, Indels: 14
0.65 0.09 0.26
Matches are distributed among these distances:
19 2 0.06
20 6 0.17
21 12 0.34
22 8 0.23
23 5 0.14
24 2 0.06
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (21 bp):
AAGGTGCTAATGTGCTGATTC
Found at i:56857 original size:39 final size:39
Alignment explanation
Indices: 56745--56878 Score: 123
Period size: 39 Copynumber: 3.3 Consensus size: 39
56735 ACACAGCCAC
*
56745 GAGTTGGTGGGGCGTTTAAAACGAGAAAGAAAAGGATGCCACGT
1 GAGTT-GT-GGGCGTTTAAAAAG-GAAA-AAAAGG-TGCCACGT
56789 GAGTTTGTGGTGC-TTTACAAAA--AAGAAAAAGGTGCCACG-
1 GAG-TTGTGG-GCGTTTA-AAAAGGAA-AAAAAGGTGCCACGT
*
56828 GAGTTGTGGGCGTTTTAAAAAGGAAAAAAAGGTGGCACGT
1 GAGTTGTGGGCG-TTTAAAAAGGAAAAAAAGGTGCCACGT
*
56868 CAGTTGTGGGC
1 GAGTTGTGGGC
56879 TTTGAGAAGA
Statistics
Matches: 78, Mismatches: 3, Indels: 22
0.76 0.03 0.21
Matches are distributed among these distances:
37 2 0.03
38 10 0.13
39 20 0.26
40 19 0.24
41 8 0.10
42 1 0.01
43 6 0.08
44 10 0.13
45 2 0.03
ACGTcount: A:0.33, C:0.11, G:0.34, T:0.22
Consensus pattern (39 bp):
GAGTTGTGGGCGTTTAAAAAGGAAAAAAAGGTGCCACGT
Found at i:58271 original size:24 final size:24
Alignment explanation
Indices: 58244--58292 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
58234 TGTGTGTTTT
**
58244 TTTTTGTTTTTGTTTTTCTTTGTG
1 TTTTTGTTTTTACTTTTCTTTGTG
* *
58268 TTTTTTTTTTTACTTTTGTTTGTG
1 TTTTTGTTTTTACTTTTCTTTGTG
58292 T
1 T
58293 GTTTACTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.02, C:0.04, G:0.14, T:0.80
Consensus pattern (24 bp):
TTTTTGTTTTTACTTTTCTTTGTG
Found at i:58297 original size:18 final size:18
Alignment explanation
Indices: 58227--58303 Score: 66
Period size: 18 Copynumber: 4.3 Consensus size: 18
58217 CTTTGCACTT
* **
58227 TTTTGTGTGTGTGTTTTT
1 TTTTGTTTGTGTGTTTAC
* *
58245 TTTTGTTTTTGT-TTTTC
1 TTTTGTTTGTGTGTTTAC
* * *
58262 TTTGTGTTTTTTTTTTTAC
1 TTT-TGTTTGTGTGTTTAC
58281 TTTTGTTTGTGTGTTTAC
1 TTTTGTTTGTGTGTTTAC
58299 TTTTG
1 TTTTG
58304 ACTTTTTCAT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
17 7 0.14
18 35 0.71
19 7 0.14
ACGTcount: A:0.03, C:0.04, G:0.18, T:0.75
Consensus pattern (18 bp):
TTTTGTTTGTGTGTTTAC
Found at i:58302 original size:24 final size:25
Alignment explanation
Indices: 58257--58309 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
58247 TTGTTTTTGT
** *
58257 TTTTCTTTGTGT-TTTTTTTTTTAC
1 TTTTCTTTGTGTGTTTACTTTTGAC
*
58281 TTTTGTTTGTGTGTTTACTTTTGAC
1 TTTTCTTTGTGTGTTTACTTTTGAC
58306 TTTT
1 TTTT
58310 TCATTATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.06, C:0.08, G:0.13, T:0.74
Consensus pattern (25 bp):
TTTTCTTTGTGTGTTTACTTTTGAC
Found at i:65269 original size:52 final size:52
Alignment explanation
Indices: 65119--65249 Score: 226
Period size: 52 Copynumber: 2.5 Consensus size: 52
65109 CCCGAAATAT
*
65119 GAAATTTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGG
*
65171 GAAAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGG
* *
65223 GCAGATTTGCCTGCATGTATCGATACA
1 GAAAATTTGCCTGCATGTATCGATACA
65250 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (52 bp):
GAAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGG
Found at i:65352 original size:13 final size:13
Alignment explanation
Indices: 65292--65390 Score: 65
Period size: 13 Copynumber: 6.9 Consensus size: 13
65282 ATTTGAGTAA
65292 TGTATCGATACAT
1 TGTATCGATACAT
* * *
65305 TTTTTGGCAGTACA-
1 TGTATCG-A-TACAT
*
65319 TGTATCGATAAACT
1 TGTATCGATACA-T
65333 ATGTATCGATACAT
1 -TGTATCGATACAT
65347 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
65365 ATGTATCGATACAT
1 -TGTATCGATACAT
65379 TGTATCGATACA
1 TGTATCGATACA
65391 ACACTTATGT
Statistics
Matches: 67, Mismatches: 8, Indels: 22
0.69 0.08 0.23
Matches are distributed among these distances:
12 3 0.04
13 26 0.39
14 7 0.10
15 15 0.22
16 6 0.09
18 1 0.01
19 9 0.13
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:65371 original size:19 final size:19
Alignment explanation
Indices: 65347--65410 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
65337 ATCGATACAT
65347 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
65366 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
65379 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
65398 TGTATCGATACAA
1 TGTATCGATACAA
65411 ATCGTTGAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 9 0.23
14 1 0.03
16 6 0.15
18 1 0.03
19 22 0.56
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:65373 original size:32 final size:32
Alignment explanation
Indices: 65332--65409 Score: 156
Period size: 32 Copynumber: 2.4 Consensus size: 32
65322 ATCGATAAAC
65332 TATGTATCGATACATTGTATCGATACAACACT
1 TATGTATCGATACATTGTATCGATACAACACT
65364 TATGTATCGATACATTGTATCGATACAACACT
1 TATGTATCGATACATTGTATCGATACAACACT
65396 TATGTATCGATACA
1 TATGTATCGATACA
65410 AATCGTTGAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.35
Consensus pattern (32 bp):
TATGTATCGATACATTGTATCGATACAACACT
Found at i:66507 original size:23 final size:23
Alignment explanation
Indices: 66480--66525 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
66470 ATTTTTAGTA
66480 AGGTATTAAAAATTCAGCTCATT
1 AGGTATTAAAAATTCAGCTCATT
* *
66503 AGGTATTGAAAATTCATCTCATT
1 AGGTATTAAAAATTCAGCTCATT
66526 CTTCTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (23 bp):
AGGTATTAAAAATTCAGCTCATT
Found at i:68426 original size:156 final size:155
Alignment explanation
Indices: 68121--68445 Score: 370
Period size: 155 Copynumber: 2.1 Consensus size: 155
68111 CTTTAGGTCG
* * * * * * **
68121 CTAGGATGCTTTTAAGGCGAAGGTAGTCTTTAAGGGTATTTTGGTATTTTTTCCTAAAATTGAAT
1 CTAGGATGCTTTCAAGACGAAAGTAATCTATAAGGGTATTTTGGTAATTTCACCTAAAATTGAAT
* * * * * *
68186 TCGATATAGCCATCGAGATTTTTTATGCTAAATGTGTGCATATAGGATGGGTTTACCCTTTTATG
66 CCGATATAGCCATCGAGATCTTTTATGCTAAAAGTGTGCATATAGGATAGGTTCACCCTTCTATG
68251 ATTATTTTCGAATCCTTTAG-GTTAA
131 ATTATTTTCGAATCCTTTAGAGTT-A
* *
68276 CTAGGATGCTTTCAAGACGAAAGTAATCTATAAGGGTATTTTGGTAATTTCACTTAAAATTGAGT
1 CTAGGATGCTTTCAAGACGAAAGTAATCTATAAGGGTATTTTGGTAATTTCACCTAAAATTGAAT
* * *
68341 CCGATTTAGTCA-CTGAGATGCTTTTATGAC-AAAAGTGTGCATTTAGGATAGGTTCACCCTTCT
66 CCGATATAGCCATC-GAGAT-CTTTTATG-CTAAAAGTGTGCATATAGGATAGGTTCACCCTTCT
**
68404 ATGATTATTTTC-AAGTTTTTTAGAGTTA
128 ATGATTATTTTCGAA-TCCTTTAGAGTTA
* *
68432 CTAGAATACTTTCA
1 CTAGGATGCTTTCA
68446 TGTCAAAGGT
Statistics
Matches: 142, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
154 1 0.01
155 71 0.50
156 66 0.46
157 4 0.03
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (155 bp):
CTAGGATGCTTTCAAGACGAAAGTAATCTATAAGGGTATTTTGGTAATTTCACCTAAAATTGAAT
CCGATATAGCCATCGAGATCTTTTATGCTAAAAGTGTGCATATAGGATAGGTTCACCCTTCTATG
ATTATTTTCGAATCCTTTAGAGTTA
Found at i:70432 original size:19 final size:21
Alignment explanation
Indices: 70386--70439 Score: 76
Period size: 19 Copynumber: 2.7 Consensus size: 21
70376 CTGAATCTGT
70386 TTGTATCGATACAAATAGTAA
1 TTGTATCGATACAAATAGTAA
* *
70407 ATGTATCGATACATA-AGT-A
1 TTGTATCGATACAAATAGTAA
70426 TTGTATCGATACAA
1 TTGTATCGATACAA
70440 TGTATCACTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 13 0.45
20 3 0.10
21 13 0.45
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (21 bp):
TTGTATCGATACAAATAGTAA
Found at i:73142 original size:19 final size:21
Alignment explanation
Indices: 73099--73149 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 21
73089 AATCTGTTTA
73099 TATCGATACAAATAGTAAATG
1 TATCGATACAAATAGTAAATG
* *
73120 TATCGATACATA-AGT-ATTG
1 TATCGATACAAATAGTAAATG
73139 TATCGATACAA
1 TATCGATACAA
73150 TGTATCACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 13 0.48
20 3 0.11
21 11 0.41
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (21 bp):
TATCGATACAAATAGTAAATG
Found at i:80205 original size:14 final size:14
Alignment explanation
Indices: 80186--80221 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
80176 TGTTCCCTTA
80186 AAAAAAATAACA-AC
1 AAAAAAA-AACACAC
80200 AAAAAAAAACACAC
1 AAAAAAAAACACAC
80214 AAAAAAAA
1 AAAAAAAA
80222 GGTACAAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 4 0.19
14 17 0.81
ACGTcount: A:0.83, C:0.14, G:0.00, T:0.03
Consensus pattern (14 bp):
AAAAAAAAACACAC
Found at i:81541 original size:30 final size:31
Alignment explanation
Indices: 81500--81662 Score: 213
Period size: 32 Copynumber: 5.2 Consensus size: 31
81490 TTTTCAACTC
*
81500 TCTTTTC-TCAAAGTCCACGACTTAGTGGCA
1 TCTTTTCTTCAAAGTCCACGACTCAGTGGCA
*
81530 TC-TTTCTTCAAAGTCCACGACTTAGTGGCA
1 TCTTTTCTTCAAAGTCCACGACTCAGTGGCA
*
81560 TCTTTTTTTCAAAGTCCACGACTCAGTGGCA
1 TCTTTTCTTCAAAGTCCACGACTCAGTGGCA
*
81591 TCTTTTTTCTTCAAAGTCCACGACTCCGTGGCA
1 TC--TTTTCTTCAAAGTCCACGACTCAGTGGCA
* * *
81624 TCCTTTTCTTCTATGTCCACGACTCCGTGGCA
1 T-CTTTTCTTCAAAGTCCACGACTCAGTGGCA
81656 CTCTTTT
1 -TCTTTT
81663 TCTTTTTAAG
Statistics
Matches: 121, Mismatches: 6, Indels: 10
0.88 0.04 0.07
Matches are distributed among these distances:
29 4 0.03
30 27 0.22
31 28 0.23
32 32 0.26
33 29 0.24
34 1 0.01
ACGTcount: A:0.19, C:0.29, G:0.15, T:0.37
Consensus pattern (31 bp):
TCTTTTCTTCAAAGTCCACGACTCAGTGGCA
Found at i:81609 original size:33 final size:32
Alignment explanation
Indices: 81502--81716 Score: 222
Period size: 34 Copynumber: 6.7 Consensus size: 32
81492 TTCAACTCTC
*
81502 TTTTC-TCAAAGTCCACGACTTAGTGGCATC-
1 TTTTCTTCAAAGTCCACGACTCAGTGGCATCT
*
81532 -TTTCTTCAAAGTCCACGACTTAGTGGCATCT
1 TTTTCTTCAAAGTCCACGACTCAGTGGCATCT
81563 TTTT-TTCAAAGTCCACGACTCAGTGGCATCTT
1 TTTTCTTCAAAGTCCACGACTCAGTGGCATC-T
* *
81595 TTTTCTTCAAAGTCCACGACTCCGTGGCATCC
1 TTTTCTTCAAAGTCCACGACTCAGTGGCATCT
* * *
81627 TTTTCTTCTATGTCCACGACTCCGTGGCACTCT
1 TTTTCTTCAAAGTCCACGACTCAGTGGCA-TCT
** * * *
81660 TTTTCTTTTTAAGCCCACAACTCTGTGGCACTCT
1 TTTTC-TTCAAAGTCCACGACTCAGTGGCA-TCT
** *
81694 TTTTCCTTTTAAGTCCACAACTC
1 TTTT-CTTCAAAGTCCACGACTC
81717 CATGGCACCC
Statistics
Matches: 165, Mismatches: 12, Indels: 12
0.87 0.06 0.06
Matches are distributed among these distances:
29 4 0.02
30 25 0.15
31 25 0.15
32 35 0.21
33 32 0.19
34 43 0.26
35 1 0.01
ACGTcount: A:0.20, C:0.29, G:0.14, T:0.37
Consensus pattern (32 bp):
TTTTCTTCAAAGTCCACGACTCAGTGGCATCT
Found at i:81624 original size:64 final size:65
Alignment explanation
Indices: 81502--81663 Score: 215
Period size: 61 Copynumber: 2.5 Consensus size: 65
81492 TTCAACTCTC
* * *
81502 TTTTCTCAAAGTCCACGACTTAGTGGCATC---TTTCTTCAAAGTCCACGACTTAGTGGCAT-CT
1 TTTTTTCAAAGTCCACGACTCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTCAGTGGCATCCT
*
81563 TTTTTTCAAAGTCCACGACTCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTCCGTGGCATCCT
1 TTTTTTCAAAGTCCACGACTCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTCAGTGGCATCCT
* * * *
81628 TTTCTTCTATGTCCACGACTCCGTGGCACTCTTTTT
1 TTTTTTCAAAGTCCACGACTCAGTGGCA-TCTTTTT
81664 CTTTTTAAGC
Statistics
Matches: 88, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
61 28 0.32
64 27 0.31
65 26 0.30
66 7 0.08
ACGTcount: A:0.19, C:0.28, G:0.15, T:0.37
Consensus pattern (65 bp):
TTTTTTCAAAGTCCACGACTCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTCAGTGGCATCCT
Found at i:81642 original size:32 final size:32
Alignment explanation
Indices: 81501--81666 Score: 205
Period size: 33 Copynumber: 5.2 Consensus size: 32
81491 TTTCAACTCT
*
81501 CTTTTC-TCAAAGTCCACGACTTAGTGGCAT-
1 CTTTTCTTCAAAGTCCACGACTCAGTGGCATC
*
81531 C-TTTCTTCAAAGTCCACGACTTAGTGGCAT-
1 CTTTTCTTCAAAGTCCACGACTCAGTGGCATC
*
81561 CTTTTTTTCAAAGTCCACGACTCAGTGGCATC
1 CTTTTCTTCAAAGTCCACGACTCAGTGGCATC
* *
81593 TTTTTTCTTCAAAGTCCACGACTCCGTGGCATC
1 -CTTTTCTTCAAAGTCCACGACTCAGTGGCATC
* * *
81626 CTTTTCTTCTATGTCCACGACTCCGTGGCACTC
1 CTTTTCTTCAAAGTCCACGACTCAGTGGCA-TC
*
81659 TTTTTCTT
1 CTTTTCTT
81667 TTTAAGCCCA
Statistics
Matches: 122, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
29 4 0.03
30 26 0.21
31 27 0.22
32 27 0.22
33 38 0.31
ACGTcount: A:0.19, C:0.29, G:0.15, T:0.37
Consensus pattern (32 bp):
CTTTTCTTCAAAGTCCACGACTCAGTGGCATC
Found at i:81690 original size:34 final size:34
Alignment explanation
Indices: 81571--81913 Score: 311
Period size: 34 Copynumber: 10.8 Consensus size: 34
81561 CTTTTTTTCA
* * * **
81571 AAGTCCACGACTCAGTGGCA-TCTTTTTTCTTCA
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTTT
* * *
81604 AAGTCCACGACTCCGTGGCA-TCCTTTT-CTTCT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTTT
* * *
81636 ATGTCCACGACTCCGTGGCACTCTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTTT
* *
81670 AAGCCCACAACTCTGTGGCACTCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTTT
*
81704 AAGTCCACAACTCCATGGCA--C-----CCTTTT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTTT
* * *
81731 AAGCCCACAATTTCGTGGCACTCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTTT
81765 AAGTCCACAACTCCGTGGCA--C-----CCTTTT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTTT
*
81792 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTTT
81826 AAGTCCACAACTCCGTGGCA--C-----CCTTTT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTTT
* * *
81853 AAGGCCACAACTCTGTGGCATTCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTTT
* *
81887 AAATCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACTCTTTT
81914 AAGTCCACAA
Statistics
Matches: 256, Mismatches: 31, Indels: 45
0.77 0.09 0.14
Matches are distributed among these distances:
27 71 0.28
29 3 0.01
32 26 0.10
33 31 0.12
34 125 0.49
ACGTcount: A:0.19, C:0.33, G:0.13, T:0.35
Consensus pattern (34 bp):
AAGTCCACAACTCCGTGGCACTCTTTTTCCTTTT
Found at i:81728 original size:27 final size:27
Alignment explanation
Indices: 81698--81960 Score: 229
Period size: 27 Copynumber: 9.0 Consensus size: 27
81688 CACTCTTTTT
*
81698 CCTTTTAAGTCCACAACTCCATGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
81725 CCTTTTAAGCCCACAATTTCGTGGCACTC
1 CCTTTTAAGTCCACAACTCCGTGGCA--C
81754 TTTTTCCTTTTAAGTCCACAACTCCGTGGCAC
1 -----CCTTTTAAGTCCACAACTCCGTGGCAC
*
81786 CCTTTTAAGCCCACAACTCCGTGGCACTC
1 CCTTTTAAGTCCACAACTCCGTGGCA--C
81815 TTTTTCCTTTTAAGTCCACAACTCCGTGGCAC
1 -----CCTTTTAAGTCCACAACTCCGTGGCAC
* *
81847 CCTTTTAAGGCCACAACTCTGTGGCATTC
1 CCTTTTAAGTCCACAACTCCGTGGCA--C
*
81876 TTTTTCCTTTTAAATCCACAACTCCGTGGCAC
1 -----CCTTTTAAGTCCACAACTCCGTGGCAC
* *
81908 CCTTTTAAGTCCACAACTCTGTGACAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
81935 CCTTTTAAGTCCATAACTCTGTGGCA
1 CCTTTTAAGTCCACAACTCCGTGGCA
81961 TCTTTCTCCT
Statistics
Matches: 196, Mismatches: 19, Indels: 42
0.76 0.07 0.16
Matches are distributed among these distances:
27 119 0.61
29 3 0.02
32 3 0.02
34 71 0.36
ACGTcount: A:0.22, C:0.33, G:0.13, T:0.32
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:81737 original size:61 final size:61
Alignment explanation
Indices: 81666--81940 Score: 453
Period size: 61 Copynumber: 4.5 Consensus size: 61
81656 CTCTTTTTCT
*
81666 TTTTAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCATGGCACCC
1 TTTTAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCC
*
81727 TTTTAAGCCCACAA-TTTCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGCCCACAACTCT-GTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCC
*
81788 TTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCC
* * *
81849 TTTTAAGGCCACAACTCTGTGGCATTCTTTTTCCTTTTAAATCCACAACTCCGTGGCACCC
1 TTTTAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCC
* * *
81910 TTTTAAGTCCACAACTCTGTGACACCCTTTT
1 TTTTAAGCCCACAACTCTGTGGCACTCTTTT
81941 AAGTCCATAA
Statistics
Matches: 200, Mismatches: 12, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
60 2 0.01
61 197 0.99
62 1 0.00
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.34
Consensus pattern (61 bp):
TTTTAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCC
Found at i:82009 original size:30 final size:29
Alignment explanation
Indices: 81974--82069 Score: 106
Period size: 30 Copynumber: 3.3 Consensus size: 29
81964 TTCTCCTTTT
**
81974 AAGCCCACAAGTCAACGACACCCTTTTCAA
1 AAGCCCACAAGTCAGTGACACCC-TTTCAA
* *
82004 AAGCCCACAAGTCGGTGGCACCCCTTTC-A
1 AAGCCCACAAGTCAGTGACA-CCCTTTCAA
* *
82033 AATCCCACAAGTCAGTGACAACC-TTCAA
1 AAGCCCACAAGTCAGTGACACCCTTTCAA
82061 AAGCCCACA
1 AAGCCCACA
82070 CAAGTTAGTG
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
27 3 0.05
28 11 0.20
29 18 0.33
30 20 0.36
31 3 0.05
ACGTcount: A:0.34, C:0.36, G:0.14, T:0.16
Consensus pattern (29 bp):
AAGCCCACAAGTCAGTGACACCCTTTCAA
Found at i:82162 original size:49 final size:49
Alignment explanation
Indices: 82086--83014 Score: 543
Period size: 49 Copynumber: 19.8 Consensus size: 49
82076 AGTGGCATCT
* ** *
82086 TCTTCTAAGTCCAATATCGCTAACCTTGAATCAGCATATTGGCACCTTTA
1 TCTT-TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* * *
82136 TCTTTAAGACAAATGTCGCTGGCCTTGAATCATCACATTGGCA-----A
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* * * *
82180 -----AAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTG
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* *
82224 TCTTTAAGACCAATGTTGCTGGCCTTGAATCAGCACATTGG---C---A
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* * * ** *
82267 ----TAAGCCCAATTTCGCTAGCCTTGAATCAGCATGTTGGCACC-TTG
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* *
82311 TCTTTAAGACCAATGTCGCTGGCATTGAATCAGCACATTGG---C---A
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* * *
82354 ----TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTG
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* * * *
82398 TCTTTAAGACCAATATGGCTGGCCTTGAATCAGCATATTGG---C---A
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* *
82441 -C---AAGCCCAATGTCGCCGGCCTTGAATCAGCACATTGG---C---A
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* * * *
82480 -C--GAA-CCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* * ** * **
82525 TCTTCAAATGTAATGTCGCAGGCCTTGAATCAGCACATTGGCACCTCCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* * * * * *
82574 TCTTTAGGTCCAATATTGCTGGCCTTGAATCAGCATATTAGCGCCTTCATCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT--T-A
** * *
82626 TCTTTAAAACCCAATGTCGTTGGCCTTGAATCAGCACATTGGCATTCTTCTCA
1 TCTTT-AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTT-T-A
* * *
82679 TCTTCAAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* * * * * * * *
82728 TCCTTAAGTCCGATATCGTTGGCCTTGAATCAACATATTTGCATCTTTA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* * **
82777 ACATTCCTAAGCCCAATGTCGCTGGCCTTGTCTCAGCACATTGGCA--TTCT-
1 TC-TT--TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-TA
* * *
82827 TCTTCAAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* ** * * * * *
82876 TCCTTAAGTCTGATATCGTTGGCCTTGAATCAACATATTGGCATCTTTA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* * **
82925 ACATTCCTAAGCCCAATGTCGCTGGCCTTGTCTCAGCACATTGGCA--TTCT-
1 TC-TT--TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-TA
* * * *
82975 TCTTCAAGTCTAATGTCGCTGGCCATGAATAAGCACATTG
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTG
83015 TCATTCTTCG
Statistics
Matches: 677, Mismatches: 147, Indels: 113
0.72 0.16 0.12
Matches are distributed among these distances:
39 160 0.24
40 2 0.00
42 4 0.01
44 1 0.00
45 3 0.00
46 2 0.00
47 63 0.09
48 68 0.10
49 218 0.32
50 12 0.02
51 5 0.01
52 100 0.15
53 36 0.05
54 3 0.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
Found at i:82215 original size:39 final size:40
Alignment explanation
Indices: 82139--82518 Score: 257
Period size: 39 Copynumber: 9.0 Consensus size: 40
82129 ACCTTTATCT
* * * *
82139 TTAAGACAAATGTCGCTGGCCTTGAATCATCACATTGGCA
1 TTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCA
* * *
82179 -AAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCA
1 TTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCA
* * *
82218 CCTTTGTCTTTAAGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCA
1 ---------TTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCA
* * * *
82267 -TAAGCCCAATTTCGCTAGCCTTGAATCAGCATGTTGGCA
1 TTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCA
* * *
82306 CCTTGTCTTTAAGACCAATGTCGCTGGCATTGAATCAGCACATTGGCA
1 --------TTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCA
*
82354 -TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1 TTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCA
*
82393 CCTTGTCTTTAAGACCAATATGGCTGGCCTTGAATCAGCATATTGGCA
1 --------TTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCA
* * * * *
82441 -CAAGCCCAATGTCGCCGGCCTTGAATCAGCACATTGGCA
1 TTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCA
** *
82480 CGAA-CCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1 TTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCA
82519 CCTTTATCTT
Statistics
Matches: 270, Mismatches: 41, Indels: 59
0.73 0.11 0.16
Matches are distributed among these distances:
39 165 0.61
40 2 0.01
48 70 0.26
49 33 0.12
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (40 bp):
TTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCA
Found at i:82349 original size:87 final size:88
Alignment explanation
Indices: 82091--82480 Score: 577
Period size: 87 Copynumber: 4.5 Consensus size: 88
82081 CATCTTCTTC
** * *
82091 TAAGTCCAATATCGCTAACCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACAAATGTCGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCGCT
*
82156 GGCCTTGAATCATCACATTGGCA
66 GGCCTTGAATCAGCACATTGGCA
* * *
82179 AAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTTGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCGCT
82244 GGCCTTGAATCAGCACATTGGCA
66 GGCCTTGAATCAGCACATTGGCA
* * * *
82267 TAAGCCCAATTTCGCTAGCCTTGAATCAGCATGTTGGCACC-TTGTCTTTAAGACCAATGTCGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCGCT
*
82331 GGCATTGAATCAGCACATTGGCA
66 GGCCTTGAATCAGCACATTGGCA
* *
82354 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTCTTTAAGACCAATATGGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCGCT
*
82418 GGCCTTGAATCAGCATATTGGCA
66 GGCCTTGAATCAGCACATTGGCA
* * * * *
82441 CAAGCCCAATGTCGCCGGCCTTGAATCAGCACATTGGCAC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
82481 GAACCCAATA
Statistics
Matches: 273, Mismatches: 29, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
87 158 0.58
88 115 0.42
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (88 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCGCT
GGCCTTGAATCAGCACATTGGCA
Found at i:82871 original size:148 final size:150
Alignment explanation
Indices: 82484--83014 Score: 714
Period size: 148 Copynumber: 3.5 Consensus size: 150
82474 TTGGCACGAA
* * * * *
82484 CCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-TATCTTCAAATGTAATGTCGCAGGC
1 CCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CTTCTATCTTCAAGTCTAATGTCGCTGGC
* * * * * * *
82548 CTTGAATCAGCACATTGGCACCTCCATCTTTAGGTCCAATATTGCTGGCCTTGAATCAGCATATT
65 CTTGAATCAGCACATTGGCACCTTCATCCTTAAGTCCGATATCGTTGGCCTTGAATCAACATATT
** * * * *
82613 AGCGCCTTCATCA-TCTTTAAAA
130 AGCATCTTTAACATTC-CT-AAG
*
82635 CCCAATGTCGTTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATGTCGCTG
1 CCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA--CTTCT-ATCTTCAAGTCTAATGTCGCTG
82700 GCCTTGAATCAGCACATTGGCACCTTCATCCTTAAGTCCGATATCGTTGGCCTTGAATCAACATA
63 GCCTTGAATCAGCACATTGGCACCTTCATCCTTAAGTCCGATATCGTTGGCCTTGAATCAACATA
*
82765 TTTGCATCTTTAACATTCCTAAG
128 TTAGCATCTTTAACATTCCTAAG
**
82788 CCCAATGTCGCTGGCCTTGTCTCAGCACATTGGCA-TTCT-TCTTCAAGTCTAATGTCGCTGGCC
1 CCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTCTATCTTCAAGTCTAATGTCGCTGGCC
* *
82851 TTGAATCAGCACATTGGCACCTTCATCCTTAAGTCTGATATCGTTGGCCTTGAATCAACATATTG
66 TTGAATCAGCACATTGGCACCTTCATCCTTAAGTCCGATATCGTTGGCCTTGAATCAACATATTA
82916 GCATCTTTAACATTCCTAAG
131 GCATCTTTAACATTCCTAAG
**
82936 CCCAATGTCGCTGGCCTTGTCTCAGCACATTGGCA-TTCT-TCTTCAAGTCTAATGTCGCTGGCC
1 CCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTCTATCTTCAAGTCTAATGTCGCTGGCC
* *
82999 ATGAATAAGCACATTG
66 TTGAATCAGCACATTG
83015 TCATTCTTCG
Statistics
Matches: 348, Mismatches: 28, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
148 184 0.53
150 4 0.01
151 32 0.09
152 3 0.01
153 35 0.10
154 88 0.25
155 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (150 bp):
CCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTCTATCTTCAAGTCTAATGTCGCTGGCC
TTGAATCAGCACATTGGCACCTTCATCCTTAAGTCCGATATCGTTGGCCTTGAATCAACATATTA
GCATCTTTAACATTCCTAAG
Found at i:82954 original size:101 final size:101
Alignment explanation
Indices: 82485--83014 Score: 371
Period size: 101 Copynumber: 5.3 Consensus size: 101
82475 TGGCACGAAC
* * *
82485 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC-TT-CAAATG--TAATGTCGCAG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA-CATTCCTAA-GCCCAATGTCGCTG
* * *
82546 GCCTTGAATCAGCACATTGGCA-CCTCCATCTTTAGGT
64 GCCTTGAATCAGCACATTGGCATCCTTCATCCTTAAGT
* * * * * * *
82583 CCAATATTGCTGGCCTTGAATCAGCATATTAGCGCCTTCATCA-TCTTTAAAACCCAATGTCGTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA-CATTC-CT-AAGCCCAATGTCGCT
*
82647 GGCCTTGAATCAGCACATTGGCATTCTTC-TCATCTTCAAGT
63 GGCCTTGAATCAGCACATTGGCATCCTTCATC--CTT-AAGT
* * * * * * *
82688 CTAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TT-CA-TCCTTAAGTCCGATATCGTTGG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACATTCC-TAAGCCCAATGTCGCTGG
* * * * *
82750 CCTTGAATCAACATATTTGCATCTTTAACATTCC-TAAGC
65 CCTTGAATCAGCACATTGGCATCCTT--CA-TCCTTAAGT
* ** * * * *
82789 CCAATGTCGCTGGCCTTGTCTCAGCACATTGGCA---TT-C-TTCTTCAAGTCTAATGTCGCTGG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACATTCCT-AAGCCCAATGTCGCTGG
82849 CCTTGAATCAGCACATTGGCA-CCTTCATCCTTAAGT
65 CCTTGAATCAGCACATTGGCATCCTTCATCCTTAAGT
** * * *
82885 CTGATATCGTTGGCCTTGAATCAACATATTGGCATCTTTAACATTCCTAAGCCCAATGTCGCTGG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-ACATTCCTAAGCCCAATGTCGCTGG
** * *
82950 CCTTGTCTCAGCACATTGGCATTCTTC-T--TCAAGT
65 CCTTGAATCAGCACATTGGCATCCTTCATCCTTAAGT
* * * * *
82984 CTAATGTCGCTGGCCATGAATAAGCACATTG
1 CCAATATCGCTGGCCTTGAATCAGCATATTG
83015 TCATTCTTCG
Statistics
Matches: 340, Mismatches: 67, Indels: 49
0.75 0.15 0.11
Matches are distributed among these distances:
95 3 0.01
96 32 0.09
98 43 0.13
99 67 0.20
101 106 0.31
102 46 0.14
103 5 0.01
104 3 0.01
105 35 0.10
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (101 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACATTCCTAAGCCCAATGTCGCTGGC
CTTGAATCAGCACATTGGCATCCTTCATCCTTAAGT
Found at i:83619 original size:19 final size:21
Alignment explanation
Indices: 83573--83626 Score: 76
Period size: 19 Copynumber: 2.7 Consensus size: 21
83563 CTGAATCCGT
83573 TTGTATCGATACAAACAGTAA
1 TTGTATCGATACAAACAGTAA
* *
83594 ATGTATCGATACATA-AGT-A
1 TTGTATCGATACAAACAGTAA
83613 TTGTATCGATACAA
1 TTGTATCGATACAA
83627 TGCATCGTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 13 0.45
20 3 0.10
21 13 0.45
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (21 bp):
TTGTATCGATACAAACAGTAA
Found at i:88514 original size:14 final size:15
Alignment explanation
Indices: 88490--88520 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
88480 GTGAGACTAC
88490 AAAAGAAAGCAAAAT
1 AAAAGAAAGCAAAAT
88505 AAAA-AAAGCAAAAT
1 AAAAGAAAGCAAAAT
88519 AA
1 AA
88521 TAATAATAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.77, C:0.06, G:0.10, T:0.06
Consensus pattern (15 bp):
AAAAGAAAGCAAAAT
Found at i:96450 original size:155 final size:150
Alignment explanation
Indices: 96186--96652 Score: 436
Period size: 154 Copynumber: 3.0 Consensus size: 150
96176 TTTTTAGTTC
* * * * * * *
96186 TTTAAGGTTACCGA-GATACTTTCACATCAAAAGTATACCTTTAGGGGCATTTTTATAATCTTTT
1 TTTAAGGTTACC-ACAATACTTTCACGTCAAAGGTATATC-TAAAGGGC-TTTTTATAATTTTTT
* * * * * *
96250 AGAACCAAGTTTTAGGTAGTCATTAGAATGCTTTTATGCTTAAGGTGTGCATTTAGCATAGGTTC
63 AGAATCAAGTCTTAGGTAGTCATGAG-ATACTTTTATGC-AAAGGTGTGCATTTAGGATAGGTTC
* *
96315 ATCATTTTATAATCTTTCCAAATCT
126 ATCCTTTTATAATCTTTCCAAGTCT
*
96340 TTTCAA-GTTACTACAATACTTTCACGTCAAAGGTATATCCCTAAA-GGCTTTTTTATAATTTTT
1 TTT-AAGGTTACCACAATACTTTCACGTCAAAGGTATAT--CTAAAGGGC-TTTTTATAATTTTT
*
96403 GTAGAATCAAGTCTTAGGTAGTCATCGAGATACTTTTATGGCAAAGGTGTGCATTTAGGACAGGT
62 -TAGAATCAAGTCTTAGGTAGTCAT-GAGATACTTTTAT-GCAAAGGTGTGCATTTAGGATAGGT
* * * * *
96468 TCATCCTCTTATAATTTTTTCATGTCC
124 TCATCCTTTTATAATCTTTCCAAGTCT
*** * * *
96495 TTTAAGGTTACCGGGATACTTTCATGTCGAAGGTATATCTAAAGGGCATTTTAGTAATTTTTTTA
1 TTTAAGGTTACCACAATACTTTCACGTCAAAGGTATATCTAAAGGGCTTTTTA-TAA-TTTTTTA
* * ** * * ** *
96560 GAATCGAGTCTTAGGTAATCATTGAGATTTTTTTCTACCAAACATATGCATTTAGGATAGGTTCA
64 GAATCAAGTCTTAGGTAGTCA-TGAGATACTTTTAT-GCAAAGGTGTGCATTTAGGATAGGTTCA
96625 TCCTTTTATAATCTTTCCAAGTCT
127 TCCTTTTATAATCTTTCCAAGTCT
96649 TTTA
1 TTTA
96653 GGGTAATCGA
Statistics
Matches: 255, Mismatches: 46, Indels: 24
0.78 0.14 0.07
Matches are distributed among these distances:
153 11 0.04
154 129 0.51
155 110 0.43
156 5 0.02
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.40
Consensus pattern (150 bp):
TTTAAGGTTACCACAATACTTTCACGTCAAAGGTATATCTAAAGGGCTTTTTATAATTTTTTAGA
ATCAAGTCTTAGGTAGTCATGAGATACTTTTATGCAAAGGTGTGCATTTAGGATAGGTTCATCCT
TTTATAATCTTTCCAAGTCT
Found at i:96706 original size:154 final size:154
Alignment explanation
Indices: 96297--96709 Score: 330
Period size: 154 Copynumber: 2.7 Consensus size: 154
96287 GCTTAAGGTG
* * * * * * * *
96297 TGCATTTAGCATAGGTTCATCATTTTATAATCTTTCCAAATCTTTTCAA-GTTA-CTACAATACT
1 TGCATTTAGGACAGGTTCATCCTCTTATAATCTTTCCAAGTCCTTT-AAGGTAACCGA-AATACT
** * * *
96360 TTCACGTCAAAGGTATATCCCTAAAGG-CTTTTTTA-TAATTTTTGTAGAATCAAGTCTTAGGTA
64 GACACGTCGAAGGTATA--CCTAAAGGAC-ATTTCAGTAATTTTTGTAGAATCAAGTCTTAGGTA
* ** ** *
96423 GTCATCGAGATACTTTTATGGCAAAGGTG
126 ATCATCGAGATACTTTTATACCAAACATA
* * * * ** **
96452 TGCATTTAGGACAGGTTCATCCTCTTATAATTTTTTCATGTCCTTTAAGGTTACCGGGATACTTT
1 TGCATTTAGGACAGGTTCATCCTCTTATAATCTTTCCAAGTCCTTTAAGGTAACCGAAATACTGA
* * * * * *
96517 CATGTCGAAGGTATATCTAAAGGGCATTTTAGTAATTTTTTTAGAATCGAGTCTTAGGTAATCAT
66 CACGTCGAAGGTATACCTAAAGGACATTTCAGTAATTTTTGTAGAATCAAGTCTTAGGTAATCAT
* ** *
96582 TGAGATTTTTTTCTACCAAACATA
131 CGAGATACTTTTATACCAAACATA
* * * * *
96606 TGCATTTAGGATAGGTTCATCCTTTTATAATCTTTCCAAGTCTTTTAGGGTAATCGAAATACTGA
1 TGCATTTAGGACAGGTTCATCCTCTTATAATCTTTCCAAGTCCTTTAAGGTAACCGAAATACTGA
* ** * *
96671 CACGTCGAATGTATACCTCTAGGATATTTCGGTAATTTT
66 CACGTCGAAGGTATACCTAAAGGACATTTCAGTAATTTT
96710 ACATTAAAAC
Statistics
Matches: 204, Mismatches: 50, Indels: 9
0.78 0.19 0.03
Matches are distributed among these distances:
153 12 0.06
154 130 0.64
155 61 0.30
156 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (154 bp):
TGCATTTAGGACAGGTTCATCCTCTTATAATCTTTCCAAGTCCTTTAAGGTAACCGAAATACTGA
CACGTCGAAGGTATACCTAAAGGACATTTCAGTAATTTTTGTAGAATCAAGTCTTAGGTAATCAT
CGAGATACTTTTATACCAAACATA
Found at i:103431 original size:12 final size:12
Alignment explanation
Indices: 103414--103439 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
103404 TGTGAAGAAG
103414 TATGACCTTTAT
1 TATGACCTTTAT
103426 TATGACCTTTAT
1 TATGACCTTTAT
103438 TA
1 TA
103440 AGTAAGTATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.15, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGACCTTTAT
Found at i:103827 original size:20 final size:19
Alignment explanation
Indices: 103804--103876 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
103794 ACACCTAGAA
* *
103804 GTATCGATACATTATGCTTT
1 GTATCGATACATGAT-CATT
103824 GTATCGATACATGATCATT
1 GTATCGATACATGATCATT
**
103843 GTATCGATATGTGGA-CAATT
1 GTATCGATACAT-GATC-ATT
103863 GTATCGATACATGA
1 GTATCGATACATGA
103877 AAATGGCAGT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
19 16 0.36
20 29 0.64
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (19 bp):
GTATCGATACATGATCATT
Found at i:103947 original size:20 final size:19
Alignment explanation
Indices: 103907--103956 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 19
103897 CCACTATTTA
103907 TATCGATACATGGACATTG
1 TATCGATACATGGACATTG
103926 TATCGATACATGATGA-ATTG
1 TATCGATACATG--GACATTG
103946 TATCGATACAT
1 TATCGATACAT
103957 TGCTTCTAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.41
20 15 0.52
21 2 0.07
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (19 bp):
TATCGATACATGGACATTG
Found at i:104025 original size:20 final size:19
Alignment explanation
Indices: 103991--104028 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
103981 ATAATTTCAA
*
103991 ATGAATGTATTGATACATT
1 ATGAATGTATCGATACATT
104010 ATGAATTGTATCGATACAT
1 ATGAA-TGTATCGATACAT
104029 AGCTACGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (19 bp):
ATGAATGTATCGATACATT
Found at i:108861 original size:20 final size:20
Alignment explanation
Indices: 108838--108910 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
108828 ACAATTCAAA
108838 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
108858 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
108879 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
108899 GTATCGATACAT
1 GTATCGATACAT
108911 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:108882 original size:21 final size:21
Alignment explanation
Indices: 108856--108931 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
108846 ACATGTTGCA
108856 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
108877 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
108897 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
108918 ATGTATCGATACAT
1 ATGTATCGATACAT
108932 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:108889 original size:41 final size:41
Alignment explanation
Indices: 108838--108931 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
108828 ACAATTCAAA
*
108838 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
108879 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
108920 GTATCGATACAT
1 GTATCGATACAT
108932 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:108988 original size:13 final size:13
Alignment explanation
Indices: 108970--108995 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
108960 TACAGCAAGT
108970 ATGTATCGATACA
1 ATGTATCGATACA
108983 ATGTATCGATACA
1 ATGTATCGATACA
108996 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:113077 original size:15 final size:15
Alignment explanation
Indices: 113057--113095 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
113047 TAAAAATGTC
*
113057 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
113072 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
*
113087 CCAAATGAA
1 CAAAATGAA
113096 ATTGATGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:121324 original size:347 final size:347
Alignment explanation
Indices: 120788--121475 Score: 1376
Period size: 347 Copynumber: 2.0 Consensus size: 347
120778 TTGAGTTTTA
120788 ATGCTTGAGAGATATAAGCATGATTAGTGATTTTTTTCTTTAAAAATATATATGATAGTGTCCCA
1 ATGCTTGAGAGATATAAGCATGATTAGTGATTTTTTTCTTTAAAAATATATATGATAGTGTCCCA
120853 TTAGTTTGTTAATTGAGAAATGCACAAGACTTAATGCAAAATTAAGCGTTCAAGTGAGCTTTTGA
66 TTAGTTTGTTAATTGAGAAATGCACAAGACTTAATGCAAAATTAAGCGTTCAAGTGAGCTTTTGA
120918 ACCTATGAGCAATTCATAAATTTTGCTCCATTTTCTTTGGTTGAGTGATATCAAACATGGTGTGT
131 ACCTATGAGCAATTCATAAATTTTGCTCCATTTTCTTTGGTTGAGTGATATCAAACATGGTGTGT
120983 TTATTCTAGAACTTGCTTGTGAATGCATTTTGAGACCACATTTTGGATTGATGCTTTAATATGAT
196 TTATTCTAGAACTTGCTTGTGAATGCATTTTGAGACCACATTTTGGATTGATGCTTTAATATGAT
121048 AAGGGCAATTAGGTTTAACCATTTCTTAGACTCTAAAATACCCACCTTTATATTTTTCCCCTTAG
261 AAGGGCAATTAGGTTTAACCATTTCTTAGACTCTAAAATACCCACCTTTATATTTTTCCCCTTAG
121113 TTAGCCATTTTGAGCCCCCTTT
326 TTAGCCATTTTGAGCCCCCTTT
121135 ATGCTTGAGAGATATAAGCATGATTAGTGATTTTTTTCTTTAAAAATATATATGATAGTGTCCCA
1 ATGCTTGAGAGATATAAGCATGATTAGTGATTTTTTTCTTTAAAAATATATATGATAGTGTCCCA
121200 TTAGTTTGTTAATTGAGAAATGCACAAGACTTAATGCAAAATTAAGCGTTCAAGTGAGCTTTTGA
66 TTAGTTTGTTAATTGAGAAATGCACAAGACTTAATGCAAAATTAAGCGTTCAAGTGAGCTTTTGA
121265 ACCTATGAGCAATTCATAAATTTTGCTCCATTTTCTTTGGTTGAGTGATATCAAACATGGTGTGT
131 ACCTATGAGCAATTCATAAATTTTGCTCCATTTTCTTTGGTTGAGTGATATCAAACATGGTGTGT
121330 TTATTCTAGAACTTGCTTGTGAATGCATTTTGAGACCACATTTTGGATTGATGCTTTAATATGAT
196 TTATTCTAGAACTTGCTTGTGAATGCATTTTGAGACCACATTTTGGATTGATGCTTTAATATGAT
121395 AAGGGCAATTAGGTTTAACCATTTCTTAGACTCTAAAATACCCACCTTTATATTTTTCCCCTTAG
261 AAGGGCAATTAGGTTTAACCATTTCTTAGACTCTAAAATACCCACCTTTATATTTTTCCCCTTAG
121460 TTAGCCATTTTGAGCC
326 TTAGCCATTTTGAGCC
121476 TATTCTCCTT
Statistics
Matches: 341, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
347 341 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (347 bp):
ATGCTTGAGAGATATAAGCATGATTAGTGATTTTTTTCTTTAAAAATATATATGATAGTGTCCCA
TTAGTTTGTTAATTGAGAAATGCACAAGACTTAATGCAAAATTAAGCGTTCAAGTGAGCTTTTGA
ACCTATGAGCAATTCATAAATTTTGCTCCATTTTCTTTGGTTGAGTGATATCAAACATGGTGTGT
TTATTCTAGAACTTGCTTGTGAATGCATTTTGAGACCACATTTTGGATTGATGCTTTAATATGAT
AAGGGCAATTAGGTTTAACCATTTCTTAGACTCTAAAATACCCACCTTTATATTTTTCCCCTTAG
TTAGCCATTTTGAGCCCCCTTT
Found at i:121601 original size:1 final size:1
Alignment explanation
Indices: 121595--121672 Score: 84
Period size: 1 Copynumber: 78.0 Consensus size: 1
121585 TGGCAATTGG
** * * * **
121595 AAAAAAAAAAAAAGTAAAAAAAAAAACAAAAAAACAAAAAAAAAACAAAAAAAAGGAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
121660 AACAAAAAAAAAA
1 AAAAAAAAAAAAA
121673 GTGAAGATTT
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
1 64 1.00
ACGTcount: A:0.90, C:0.05, G:0.04, T:0.01
Consensus pattern (1 bp):
A
Found at i:121619 original size:19 final size:19
Alignment explanation
Indices: 121595--121669 Score: 96
Period size: 21 Copynumber: 3.7 Consensus size: 19
121585 TGGCAATTGG
121595 AAAAAAAAAAAAAGTAAAAA
1 AAAAAAAAAAAAAG-AAAAA
*
121615 AAAAAACAAAAAAACAAAAA
1 AAAAAA-AAAAAAAGAAAAA
121635 AAAAACAAAAAAAAGGAAAAA
1 AAAAA-AAAAAAAA-GAAAAA
121656 AAAAAACAAAAAAA
1 AAAAAA-AAAAAAA
121670 AAAGTGAAGA
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
20 24 0.49
21 25 0.51
ACGTcount: A:0.89, C:0.05, G:0.04, T:0.01
Consensus pattern (19 bp):
AAAAAAAAAAAAAGAAAAA
Found at i:121639 original size:33 final size:32
Alignment explanation
Indices: 121598--121672 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 32
121588 CAATTGGAAA
* *
121598 AAAAAAAAAAGTAAAAAAAA-AAACAAAAAAAC
1 AAAAAAAAAA-CAAAAAAAAGAAAAAAAAAAAC
121630 AAAAAAAAAACAAAAAAAAGGAAAAAAAAAAAC
1 AAAAAAAAAACAAAAAAAA-GAAAAAAAAAAAC
121663 AAAAAAAAAA
1 AAAAAAAAAA
121673 GTGAAGATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
31 8 0.21
32 10 0.26
33 21 0.54
ACGTcount: A:0.89, C:0.05, G:0.04, T:0.01
Consensus pattern (32 bp):
AAAAAAAAAACAAAAAAAAGAAAAAAAAAAAC
Found at i:125879 original size:20 final size:21
Alignment explanation
Indices: 125801--125878 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 21
125791 ATGTCCAAAA
*
125801 TGTATCGATACATGTTTTTG-
1 TGTATCGATACATCTTTTTGT
** *
125821 TGTATCGATACATCTGGAAATTCT
1 TGTATCGATACATCT---TTTTGT
125845 ATGTATCGATACAT-TTTTTGT
1 -TGTATCGATACATCTTTTTGT
125866 TGTATCGATACAT
1 TGTATCGATACAT
125879 TGTATCGATA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
20 27 0.59
21 3 0.07
23 2 0.04
24 1 0.02
25 13 0.28
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.45
Consensus pattern (21 bp):
TGTATCGATACATCTTTTTGT
Found at i:125883 original size:13 final size:13
Alignment explanation
Indices: 125865--125903 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
125855 ACATTTTTTG
125865 TTGTATCGATACA
1 TTGTATCGATACA
125878 TTGTATCGATACA
1 TTGTATCGATACA
*
125891 CTGTATCGATACA
1 TTGTATCGATACA
125904 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:128383 original size:20 final size:20
Alignment explanation
Indices: 128360--128432 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
128350 ACAATTCAAA
128360 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
128380 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
128401 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
128421 GTATCGATACAT
1 GTATCGATACAT
128433 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:128404 original size:21 final size:21
Alignment explanation
Indices: 128378--128453 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
128368 ACATGTTGCA
128378 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
128399 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
128419 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
128440 ATGTATCGATACAT
1 ATGTATCGATACAT
128454 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:128411 original size:41 final size:41
Alignment explanation
Indices: 128360--128453 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
128350 ACAATTCAAA
*
128360 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
128401 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
128442 GTATCGATACAT
1 GTATCGATACAT
128454 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:128510 original size:13 final size:13
Alignment explanation
Indices: 128492--128517 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
128482 TACAGCAAGT
128492 ATGTATCGATACA
1 ATGTATCGATACA
128505 ATGTATCGATACA
1 ATGTATCGATACA
128518 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:133397 original size:18 final size:20
Alignment explanation
Indices: 133374--133426 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 20
133364 GCAACCCTCA
*
133374 CCAGGTCGAGACTGGCA-T-
1 CCAGGTCGAGACCGGCATTC
*
133392 CCAGGTCGCGACCGGCATTC
1 CCAGGTCGAGACCGGCATTC
*
133412 CCAGGTCGAAACCGG
1 CCAGGTCGAGACCGG
133427 GCAGCCCTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 15 0.52
19 1 0.03
20 13 0.45
ACGTcount: A:0.21, C:0.34, G:0.32, T:0.13
Consensus pattern (20 bp):
CCAGGTCGAGACCGGCATTC
Found at i:134922 original size:14 final size:14
Alignment explanation
Indices: 134903--134929 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
134893 TAAGGCTCTC
134903 GTTAAAAAATTTCA
1 GTTAAAAAATTTCA
134917 GTTAAAAAATTTC
1 GTTAAAAAATTTC
134930 TCCCCCTTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.37
Consensus pattern (14 bp):
GTTAAAAAATTTCA
Found at i:140389 original size:21 final size:20
Alignment explanation
Indices: 140364--140417 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 20
140354 TTACAAGCCA
140364 ATGTATCGATACAAT-TTGGT
1 ATGTATCGATACAATCTT-GT
140384 CATGTATCGATAC-ATCTTGT
1 -ATGTATCGATACAATCTTGT
140404 ATGTATCGATACAA
1 ATGTATCGATACAA
140418 ACAGTTAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 12 0.39
20 5 0.16
21 14 0.45
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACAATCTTGT
Found at i:140517 original size:13 final size:13
Alignment explanation
Indices: 140499--140523 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
140489 TATAGTGGTC
140499 ATGTATCGATACA
1 ATGTATCGATACA
140512 ATGTATCGATAC
1 ATGTATCGATAC
140524 TGTGCATTAT
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:140517 original size:32 final size:33
Alignment explanation
Indices: 140469--140544 Score: 93
Period size: 32 Copynumber: 2.3 Consensus size: 33
140459 ATCTTTGCAA
* * *
140469 GTATCGATATATTGTATCGATA-TAGTG-GTCAT
1 GTATCGATACAATGTATCGATACT-GTGCATCAT
*
140501 GTATCGATACAATGTATCGATACTGTGCATTAT
1 GTATCGATACAATGTATCGATACTGTGCATCAT
140534 GTATCGATACA
1 GTATCGATACA
140545 TCTGAAGGTG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 23 0.61
33 15 0.39
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (33 bp):
GTATCGATACAATGTATCGATACTGTGCATCAT
Found at i:142048 original size:21 final size:21
Alignment explanation
Indices: 142024--142080 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
142014 TAATTTTCTT
* *
142024 GAAAAGAAATTAAATGAATTA
1 GAAAAGAAAATAAATAAATTA
142045 GAAAAGAAAATAAATAAATTA
1 GAAAAGAAAATAAATAAATTA
* * *
142066 TAAGAGAAAAGAAAT
1 GAAAAGAAAATAAAT
142081 GAGTTGCAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.67, C:0.00, G:0.14, T:0.19
Consensus pattern (21 bp):
GAAAAGAAAATAAATAAATTA
Found at i:145487 original size:52 final size:52
Alignment explanation
Indices: 145404--145508 Score: 156
Period size: 52 Copynumber: 2.0 Consensus size: 52
145394 AATCTCGTTT
* * ** *
145404 TCACTATTCATCACTATTTATGTATCGATACATTTTGAATAGTATTGATACA
1 TCACTATTCATCACTATTCATGTATCAATACATTGCGAATAGTATCGATACA
*
145456 TCACTATTCATCACTGTTCATGTATCAATACATTGCGAATAGTATCGATACA
1 TCACTATTCATCACTATTCATGTATCAATACATTGCGAATAGTATCGATACA
145508 T
1 T
145509 TGAGTCTAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.39
Consensus pattern (52 bp):
TCACTATTCATCACTATTCATGTATCAATACATTGCGAATAGTATCGATACA
Found at i:146794 original size:7 final size:7
Alignment explanation
Indices: 146782--146814 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
146772 AGTGGGGTCA
146782 AAAAAAT
1 AAAAAAT
146789 AAAAAAT
1 AAAAAAT
146796 AAAAAA-
1 AAAAAAT
146802 AAACAAAT
1 AAA-AAAT
146810 AAAAA
1 AAAAA
146815 CCCAAAAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 3 0.12
7 18 0.75
8 3 0.12
ACGTcount: A:0.88, C:0.03, G:0.00, T:0.09
Consensus pattern (7 bp):
AAAAAAT
Found at i:148312 original size:66 final size:65
Alignment explanation
Indices: 148242--148643 Score: 243
Period size: 66 Copynumber: 6.1 Consensus size: 65
148232 TTTAACACAA
* * * ** *
148242 GTTTCACCTTGGTTATCGAAAGTTAGTTCATATGGTTTCATCCCAACCAATCTTATTTCGACTTA
1 GTTTCACCTTGCTCATCCAAAGTTAGTTCATATGGTTTCATCCCGGCCAACCTT-TTTCGACTTA
148307 G
65 G
* * * * * * * *
148308 GTTTCATCTTACTCATCCAAAGTTAGTTCGTATAGTTTCATCCTGGCCTACACTTTTT-AATTTA
1 GTTTCACCTTGCTCATCCAAAGTTAGTTCATATGGTTTCATCCCGGCCAAC-CTTTTTCGACTTA
148372 G
65 G
**** * * * * * ** *
148373 GTTTTGTTTTGGTTATCCAAAGTTGGTTCACATGATTTCATCTTGGCCAGCCCTTTTTTCGACTT
1 GTTTCACCTTGCTCATCCAAAGTTAGTTCATATGGTTTCATCCCGGCCA-ACC-TTTTTCGACTT
148438 AG
64 AG
* * * * * * ** *
148440 GTTTCATCATGGTCATCTAAAGTTAGTTCATATGGTTTTATCTCAACCAACCCCTTTTCGACTTA
1 GTTTCACCTTGCTCATCCAAAGTTAGTTCATATGGTTTCATCCCGGCCAA-CCTTTTTCGACTTA
148505 G
65 G
* * * * * *
148506 GTTCCACCTTGCTCA-CCATTAGTTGGTTCTTATGGTTTCATCCTGGCCAATTCTTTTTCGACTT
1 GTTTCACCTTGCTCATCCA-AAGTTAGTTCATATGGTTTCATCCCGGCCAA-CCTTTTTCGACTT
148570 AG
64 AG
* * * ** * * * * * *
148572 GTTTCGCCTTGCTTA-CCAAAGTTGGTTCGCATAGTTTCATCCCTGCTAGCCCTTTTCGACTTTG
1 GTTTCACCTTGCTCATCCAAAGTTAGTTCATATGGTTTCATCCCGGCCAACCTTTTTCGACTTAG
*
148636 ATTTCACC
1 GTTTCACC
148644 CTAGTCTGCT
Statistics
Matches: 253, Mismatches: 77, Indels: 14
0.74 0.22 0.04
Matches are distributed among these distances:
64 18 0.07
65 67 0.26
66 122 0.48
67 46 0.18
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (65 bp):
GTTTCACCTTGCTCATCCAAAGTTAGTTCATATGGTTTCATCCCGGCCAACCTTTTTCGACTTAG
Found at i:148598 original size:198 final size:198
Alignment explanation
Indices: 148242--148612 Score: 453
Period size: 198 Copynumber: 1.9 Consensus size: 198
148232 TTTAACACAA
* * * *
148242 GTTTCACCTTGGTTATCGAAAGTTAGTTCATATGGTTTCATCCCAACCAATCTTATTTCGACTTA
1 GTTTCACCATGGTCATCGAAAGTTAGTTCATATGGTTTCATCCCAACCAACCCTATTTCGACTTA
* * * *
148307 GGTTTCATCTTACTCATCCAAAGTTAGTTCGTATAGTTTCATCCTGGCCTACACTTTTTAATTTA
66 GGTTCCACCTTACTCATCCAAAGTTAGTTCGTATAGTTTCATCCTGGCCAACACTTTTTAACTTA
* ** *
148372 GGTTTTGTTTTGGTTATCCAAAGTTGGTTCACAT-GATTTCATCTTGGCCAGCCCTTTTTTCGAC
131 GGTTTCGCCTTGCTTATCCAAAGTTGGTTCACATAG-TTTCATCTTGGCCAGCCCTTTTTTCGAC
148436 TTAG
195 TTAG
* * * *
148440 GTTTCATCATGGTCATCTAAAGTTAGTTCATATGGTTTTATCTCAACCAACCCCT-TTTCGACTT
1 GTTTCACCATGGTCATCGAAAGTTAGTTCATATGGTTTCATCCCAACCAA-CCCTATTTCGACTT
* * * * * ** *
148504 AGGTTCCACCTTGCTCA-CCATTAGTTGGTTCTTATGGTTTCATCCTGGCCAATTCTTTTTCGAC
65 AGGTTCCACCTTACTCATCCA-AAGTTAGTTCGTATAGTTTCATCCTGGCCAACACTTTTT-AAC
*
148568 TTAGGTTTCGCCTTGCTTA-CCAAAGTTGGTTCGCATAGTTTCATC
128 TTAGGTTTCGCCTTGCTTATCCAAAGTTGGTTCACATAGTTTCATC
148613 CCTGCTAGCC
Statistics
Matches: 144, Mismatches: 25, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
197 3 0.02
198 122 0.85
199 19 0.13
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.42
Consensus pattern (198 bp):
GTTTCACCATGGTCATCGAAAGTTAGTTCATATGGTTTCATCCCAACCAACCCTATTTCGACTTA
GGTTCCACCTTACTCATCCAAAGTTAGTTCGTATAGTTTCATCCTGGCCAACACTTTTTAACTTA
GGTTTCGCCTTGCTTATCCAAAGTTGGTTCACATAGTTTCATCTTGGCCAGCCCTTTTTTCGACT
TAG
Found at i:150801 original size:20 final size:20
Alignment explanation
Indices: 150776--150827 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
150766 ATCGATATAT
**
150776 TGTATCGATACATGACCAAA
1 TGTATCGATACATGAAAAAA
*
150796 TGTATCGATACTTGAAAAAA
1 TGTATCGATACATGAAAAAA
150816 TGTATCGATACA
1 TGTATCGATACA
150828 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (20 bp):
TGTATCGATACATGAAAAAA
Found at i:150898 original size:13 final size:13
Alignment explanation
Indices: 150880--150907 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
150870 ACACACAATA
150880 TGTATCGATACAT
1 TGTATCGATACAT
150893 TGTATCGATACAT
1 TGTATCGATACAT
150906 TG
1 TG
150908 GCTTGTAACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:157025 original size:13 final size:13
Alignment explanation
Indices: 157007--157077 Score: 70
Period size: 13 Copynumber: 4.9 Consensus size: 13
156997 CAGGTTCAAA
157007 TGTATCGATACAT
1 TGTATCGATACAT
157020 TGTATCGATACAGCATTCT
1 TGTATCGAT--A-CA---T
157039 CTGTATCGATACAT
1 -TGTATCGATACAT
*
157053 TGTATCGATACAG
1 TGTATCGATACAT
157066 TGTATCGATACA
1 TGTATCGATACA
157078 AGGGGATTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 14
0.77 0.02 0.22
Matches are distributed among these distances:
13 33 0.66
14 1 0.02
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 1 0.02
20 9 0.18
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:157029 original size:33 final size:33
Alignment explanation
Indices: 156987--157065 Score: 115
Period size: 33 Copynumber: 2.4 Consensus size: 33
156977 AATTCCAGAA
*
156987 TGTATCGATACAG-GTTCAAATGTATCGATACAT
1 TGTATCGATACAGCATTC-AATGTATCGATACAT
**
157020 TGTATCGATACAGCATTCTCTGTATCGATACAT
1 TGTATCGATACAGCATTCAATGTATCGATACAT
157053 TGTATCGATACAG
1 TGTATCGATACAG
157066 TGTATCGATA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
33 39 0.93
34 3 0.07
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAGCATTCAATGTATCGATACAT
Found at i:157394 original size:16 final size:15
Alignment explanation
Indices: 157348--157395 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 15
157338 CTAGGAATTT
157348 ATTGTATTTAC-TTG
1 ATTGTATTTACTTTG
157362 ACTTGGTATTTATCTTTG
1 A-TT-GTATTTA-CTTTG
157380 ATTGTATTGTACTTTG
1 ATTGTATT-TACTTTG
157396 CCGTTTAATC
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 1 0.03
15 2 0.07
16 17 0.59
17 5 0.17
18 4 0.14
ACGTcount: A:0.19, C:0.08, G:0.17, T:0.56
Consensus pattern (15 bp):
ATTGTATTTACTTTG
Found at i:158203 original size:13 final size:13
Alignment explanation
Indices: 158185--158209 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
158175 AGATTGCACA
158185 GTATCGATACATT
1 GTATCGATACATT
158198 GTATCGATACAT
1 GTATCGATACAT
158210 GACCAAATGT
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:158222 original size:20 final size:20
Alignment explanation
Indices: 158197--158248 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
158187 ATCGATACAT
**
158197 TGTATCGATACATGACCAAA
1 TGTATCGATACATGAAAAAA
*
158217 TGTATCGATACTTGAAAAAA
1 TGTATCGATACATGAAAAAA
158237 TGTATCGATACA
1 TGTATCGATACA
158249 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (20 bp):
TGTATCGATACATGAAAAAA
Found at i:158319 original size:13 final size:13
Alignment explanation
Indices: 158301--158326 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
158291 ACACACAATA
158301 TGTATCGATACAT
1 TGTATCGATACAT
158314 TGTATCGATACAT
1 TGTATCGATACAT
158327 CCTAAAATGT
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:158342 original size:33 final size:32
Alignment explanation
Indices: 158281--158348 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 32
158271 GTAGCCAAAT
*
158281 TTGTATCGATACACACAATATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
158313 TTGTATCGATACATC-CTAAAATGTATCGATACA
1 TTGTATCGATACA-CAC-AAAATGTATCGATACA
158346 TTG
1 TTG
158349 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 14 0.42
33 19 0.58
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:159489 original size:35 final size:36
Alignment explanation
Indices: 159443--159511 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
159433 GACTACCTAG
* *
159443 TTTTTGAAAATAAA-AAAATATTAATAATGATATGA
1 TTTTTAAAAATAAAGAAAATATAAATAATGATATGA
* *
159478 TTTTTAAAAATAAAGAATATATAAATACTGATAT
1 TTTTTAAAAATAAAGAAAATATAAATAATGATAT
159512 ATCAATAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 13 0.45
36 16 0.55
ACGTcount: A:0.54, C:0.01, G:0.07, T:0.38
Consensus pattern (36 bp):
TTTTTAAAAATAAAGAAAATATAAATAATGATATGA
Found at i:159870 original size:13 final size:12
Alignment explanation
Indices: 159844--159886 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
159834 AATATGCTTA
159844 TATTTTTAATTTT
1 TATTTTTAA-TTT
159857 TACTTTTTAATTT
1 TA-TTTTTAATTT
*
159870 TATTATTTATTTT
1 TATT-TTTAATTT
159883 TATT
1 TATT
159887 AAAAAATTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 2 0.07
13 18 0.67
14 7 0.26
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (12 bp):
TATTTTTAATTT
Found at i:159884 original size:6 final size:6
Alignment explanation
Indices: 159844--159886 Score: 50
Period size: 7 Copynumber: 6.7 Consensus size: 6
159834 AATATGCTTA
*
159844 TATTTT TAATTTT TACTTTT TAATTT TATTATT TATTTT TATT
1 TATTTT T-ATTTT TA-TTTT TATTTT TATT-TT TATTTT TATT
159887 AAAAAATTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
6 14 0.44
7 18 0.56
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (6 bp):
TATTTT
Found at i:166595 original size:33 final size:34
Alignment explanation
Indices: 166558--166684 Score: 100
Period size: 35 Copynumber: 3.6 Consensus size: 34
166548 TGAAATTTAT
* *
166558 ATAATAAATAATTA-AAAATTTTATTTATATTAA
1 ATAATAAATAATAATAAAATTATATTTATATTAA
*
166591 ATAATAAA-ATATAAATAAAATTATATTTATGTTAA
1 ATAATAAATA-AT-AATAAAATTATATTTATATTAA
* *
166626 ATAATAATTAAAAATTTATTAAAATTATATTTATA-TAA
1 ATAAT-A--AATAA--TAATAAAATTATATTTATATTAA
*
166664 AAAATAAATTAATAA-AAAATT
1 ATAATAAA-TAATAATAAAATT
166685 TGAGGAAGGT
Statistics
Matches: 76, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
32 1 0.01
33 16 0.21
34 3 0.04
35 24 0.32
36 3 0.04
37 1 0.01
38 10 0.13
39 17 0.22
40 1 0.01
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (34 bp):
ATAATAAATAATAATAAAATTATATTTATATTAA
Found at i:167921 original size:23 final size:23
Alignment explanation
Indices: 167874--167929 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
167864 TTAAGGACTT
*
167874 TTTATTAAAATTTCTAAATGTTA
1 TTTATTAAAATTACTAAATGTTA
* *
167897 TTTATTAAAATTACATTAATGTATT
1 TTTATTAAAATTAC-TAAATGT-TA
167922 TTTATTAA
1 TTTATTAA
167930 CTAATATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 13 0.46
24 6 0.21
25 9 0.32
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.54
Consensus pattern (23 bp):
TTTATTAAAATTACTAAATGTTA
Found at i:170078 original size:12 final size:12
Alignment explanation
Indices: 170063--170121 Score: 59
Period size: 12 Copynumber: 4.9 Consensus size: 12
170053 AAAACTCAAC
170063 AAAAAAAGCAAG
1 AAAAAAAGCAAG
*
170075 AAAAAAAGGAAAG
1 AAAAAAA-GCAAG
170088 AAAAAAGAG-AA-
1 AAAAAA-AGCAAG
*
170099 AAAAAAAACAAG
1 AAAAAAAGCAAG
*
170111 AAAAATAGCAA
1 AAAAAAAGCAA
170122 AACTAGTTAG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
10 1 0.03
11 8 0.21
12 18 0.46
13 11 0.28
14 1 0.03
ACGTcount: A:0.78, C:0.05, G:0.15, T:0.02
Consensus pattern (12 bp):
AAAAAAAGCAAG
Found at i:170079 original size:13 final size:13
Alignment explanation
Indices: 170063--170115 Score: 58
Period size: 13 Copynumber: 4.3 Consensus size: 13
170053 AAAACTCAAC
170063 AAAAAAAGCAAGA
1 AAAAAAAGCAAGA
* *
170076 AAAAAAGGAAAGA
1 AAAAAAAGCAAGA
*
170089 AAAAAGAG-AA-A
1 AAAAAAAGCAAGA
170100 AAAAAAA-CAAGA
1 AAAAAAAGCAAGA
170112 AAAA
1 AAAA
170116 TAGCAAAACT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
11 9 0.27
12 7 0.21
13 17 0.52
ACGTcount: A:0.81, C:0.04, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAAAGCAAGA
Found at i:170657 original size:16 final size:16
Alignment explanation
Indices: 170638--170669 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
170628 GTGATTAAAA
*
170638 GAAATTGTTAATTTGC
1 GAAATTGTTAAATTGC
170654 GAAATTGTTAAATTGC
1 GAAATTGTTAAATTGC
170670 TTTATTAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.41
Consensus pattern (16 bp):
GAAATTGTTAAATTGC
Done.