Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold449
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: 551709
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 1 of 3
Found at i:220 original size:28 final size:28
Alignment explanation
Indices: 196--250 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
186 GAATATCCTC
196 TAAAAAATAACGGGGTTGGAGTATCCCA
1 TAAAAAATAACGGGGTTGGAGTATCCCA
* * *
224 TCAGAAATAACGAGGTTGGAGTATCCC
1 TAAAAAATAACGGGGTTGGAGTATCCC
251 CGATGGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.22
Consensus pattern (28 bp):
TAAAAAATAACGGGGTTGGAGTATCCCA
Found at i:341 original size:80 final size:79
Alignment explanation
Indices: 208--599 Score: 443
Period size: 79 Copynumber: 5.0 Consensus size: 79
198 AAAAATAACG
* *
208 GGGTTGGAGTATCCCATCAGAAATAACGAGGTTGGAGTATCCCCGATGGTGGAAAATCAATGCTT
1 GGGTTGGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCCCGATGGTGGAAAATCAATGTTT
273 TAGAAAATAAAACCA
66 TA-AAAATAAAACCA
* * * *
288 GGGTTGGAGTATCCTCTTAGAAATAACGGGGTTGGAGTATCCTCGATGGTGGAAAATCAATGTTT
1 GGGTTGGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCCCGATGGTGGAAAATCAATGTTT
353 TAAAAATAAAA-CA
66 TAAAAATAAAACCA
* * * * ** * *
366 GGGGTTGGAGTATCCCCTCAAAAATAACAAGGTTAGAATATCCATGTTGGTGGAAAATCAGTGTT
1 -GGGTTGGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCCCGATGGTGGAAAATCAATGTT
* * *
431 TTAGAGATAAAACTA
65 TTAAAAATAAAACCA
* * *
446 GGGTT-GAGATATCCCCTCAGAAATAATG-GGTTGGAGTATCCCCGATGGTGAAAAATCAGTGTT
1 GGGTTGGAG-TATCCCCTCAGAAATAACGAGGTTGGAGTATCCCCGATGGTGGAAAATCAATGTT
509 TTAAAAATAAAACCA
65 TTAAAAATAAAACCA
* * * * * * **
524 GGATTGGAGTAGCCCCTC-GAAAATGAC-ATGGTTAGAGTATCCCCAATGGTAGAAAATTGATGT
1 GGGTTGGAGTATCCCCTCAG-AAATAACGA-GGTTGGAGTATCCCCGATGGTGGAAAATCAATGT
*
587 TTTAGAAATAAAA
64 TTTAAAAATAAAA
600 TCATCAGTGA
Statistics
Matches: 261, Mismatches: 44, Indels: 15
0.82 0.14 0.05
Matches are distributed among these distances:
77 1 0.00
78 63 0.24
79 135 0.52
80 62 0.24
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (79 bp):
GGGTTGGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCCCGATGGTGGAAAATCAATGTTT
TAAAAATAAAACCA
Found at i:532 original size:157 final size:159
Alignment explanation
Indices: 211--599 Score: 464
Period size: 157 Copynumber: 2.5 Consensus size: 159
201 AATAACGGGG
* * * * *
211 TTGGAGTATCCCATCAGAAATAACGAGGTTGGAGTATCCCCGATGGTGGAAAATCAATGCTTTAG
1 TTGGAGTATCCCCTCAAAAATAACAAGGTTAGAGTATCCACGATGGTGGAAAATCAATGCTTTAG
* * * *
276 AAAATAAAACCAGGGTTGGAGTATCCTCTTAGAAATAACGGGGTTGGAGTATCCTCGATGGTGGA
66 AAAATAAAACCAGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGGTGAA
*
341 AAATCAATGTTTTAAAAATAAAACAGGGG
131 AAATCAATGTTTTAAAAATAAAACAGGGA
* * * * *
370 TTGGAGTATCCCCTCAAAAATAACAAGGTTAGAATATCCATGTTGGTGGAAAATCAGTGTTTTAG
1 TTGGAGTATCCCCTCAAAAATAACAAGGTTAGAGTATCCACGATGGTGGAAAATCAATGCTTTAG
* * *
435 -AGATAAAACTAGGGTT-GAGATATCCCCTCAGAAATAA-TGGGTTGGAGTATCCCCGATGGTGA
66 AAAATAAAACCAGGGTTGGAG-TATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGGTGA
*
497 AAAATCAGTGTTTTAAAAATAAAACCA-GGA
130 AAAATCAATGTTTTAAAAATAAAA-CAGGGA
* * * * * * * ** *
527 TTGGAGTAGCCCCTCGAAAATGACATGGTTAGAGTATCCCCAATGGTAGAAAATTGATGTTTTAG
1 TTGGAGTATCCCCTCAAAAATAACAAGGTTAGAGTATCCACGATGGTGGAAAATCAATGCTTTAG
592 -AAATAAAA
66 AAAATAAAA
600 TCATCAGTGA
Statistics
Matches: 195, Mismatches: 33, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
157 109 0.56
158 31 0.16
159 55 0.28
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (159 bp):
TTGGAGTATCCCCTCAAAAATAACAAGGTTAGAGTATCCACGATGGTGGAAAATCAATGCTTTAG
AAAATAAAACCAGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGGTGAA
AAATCAATGTTTTAAAAATAAAACAGGGA
Found at i:1384 original size:19 final size:19
Alignment explanation
Indices: 1356--1405 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
1346 ATCGATACAA
*
1356 TGTATTGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
1375 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTGT
1394 TGTATCGATACA
1 TGTATCGATACA
1406 ATGTATCGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:1476 original size:13 final size:13
Alignment explanation
Indices: 1458--1482 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1448 ATTACTCAAA
1458 TGTATCGATACAT
1 TGTATCGATACAT
1471 TGTATCGATACA
1 TGTATCGATACA
1483 CTGATCTTTG
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):
TGTATCGATACAT
Found at i:1495 original size:20 final size:20
Alignment explanation
Indices: 1470--1535 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
1460 TATCGATACA
1470 TTGTATCGATACACTGATCT
1 TTGTATCGATACACTGATCT
1490 TTGTATCGAT--AC--A--T
1 TTGTATCGATACACTGATCT
*
1504 TT-TATTGATACACTGATCT
1 TTGTATCGATACACTGATCT
1523 TTGTATCGATACA
1 TTGTATCGATACA
1536 TGCAGGCAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
13 6 0.16
14 3 0.08
15 2 0.05
16 1 0.03
17 1 0.03
18 2 0.05
19 3 0.08
20 19 0.51
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (20 bp):
TTGTATCGATACACTGATCT
Found at i:1500 original size:33 final size:33
Alignment explanation
Indices: 1458--1536 Score: 140
Period size: 33 Copynumber: 2.4 Consensus size: 33
1448 ATTACTCAAA
1458 TGTATCGATACATTGTATCGATACACTGATCTT
1 TGTATCGATACATTGTATCGATACACTGATCTT
* *
1491 TGTATCGATACATTTTATTGATACACTGATCTT
1 TGTATCGATACATTGTATCGATACACTGATCTT
1524 TGTATCGATACAT
1 TGTATCGATACAT
1537 GCAGGCAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATTGTATCGATACACTGATCTT
Found at i:3691 original size:62 final size:59
Alignment explanation
Indices: 3612--3790 Score: 198
Period size: 62 Copynumber: 2.9 Consensus size: 59
3602 CTTCAAATAC
* *
3612 CTTCTTAAAGTCCACGACTCAGTGGCAATCCCTTCTTAAAGTCCACGACTCAGTGGTAATCT
1 CTTCTCAAAGTCCACGACTCAGTGGC-ATCCTTTCTTAAAGTCCACGACTCAGTGG-AAT-T
* * * * *
3674 CTTCTCAAAGCCCACGACTCAGTGGCAT-TTTATCTCAAAGTCCACGACTGAGTGGCATT
1 CTTCTCAAAGTCCACGACTCAGTGGCATCCTT-TCTTAAAGTCCACGACTCAGTGGAATT
* * *
3733 TTGTCTCAAAGTCCACGACTTAGTGGCATCCTTTTCTTCAAAGTCCACGACTTAGTGG
1 CT-TCTCAAAGTCCACGACTCAGTGGCATCC-TTTCTT-AAAGTCCACGACTCAGTGG
3791 CATCCTTTTC
Statistics
Matches: 99, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
59 2 0.02
60 27 0.27
61 26 0.26
62 44 0.44
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.30
Consensus pattern (59 bp):
CTTCTCAAAGTCCACGACTCAGTGGCATCCTTTCTTAAAGTCCACGACTCAGTGGAATT
Found at i:3712 original size:30 final size:30
Alignment explanation
Indices: 3613--3800 Score: 209
Period size: 30 Copynumber: 6.1 Consensus size: 30
3603 TTCAAATACC
* **
3613 TTCTTAAAGTCCACGACTCAGTGGCAATCCC
1 TTCTCAAAGTCCACGACTCAGTGGC-ATCTT
* * *
3644 TTCTTAAAGTCCACGACTCAGTGGTAATCTC
1 TTCTCAAAGTCCACGACTCAGTGG-CATCTT
*
3675 TTCTCAAAGCCCACGACTCAGTGGCAT-TT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTT
*
3704 TATCTCAAAGTCCACGACTGAGTGGCAT-TT
1 T-TCTCAAAGTCCACGACTCAGTGGCATCTT
*
3734 TGTCTCAAAGTCCACGACTTAGTGGCATCCTT
1 T-TCTCAAAGTCCACGACTCAGTGGCAT-CTT
*
3766 TTCTTCAAAGTCCACGACTTAGTGGCATCCTT
1 TTC-TCAAAGTCCACGACTCAGTGGCAT-CTT
3798 TTC
1 TTC
3801 ATTTAAGCCC
Statistics
Matches: 142, Mismatches: 10, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
29 2 0.01
30 54 0.38
31 52 0.37
32 34 0.24
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (30 bp):
TTCTCAAAGTCCACGACTCAGTGGCATCTT
Found at i:3823 original size:32 final size:32
Alignment explanation
Indices: 3741--3925 Score: 147
Period size: 32 Copynumber: 5.6 Consensus size: 32
3731 TTTTGTCTCA
* ** **
3741 AAGTCCACGACTTAGTGGCATCCTTTTCTTCA
1 AAGTCCACAACTCCGTGGCATCCTTTTCTTTT
* ** *
3773 AAGTCCACGACTTAGTGGCATCCTTTTCATTT
1 AAGTCCACAACTCCGTGGCATCCTTTTCTTTT
* **
3805 AAGCCCACAACTCCGTGGCACTTTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-TCCTTTT-CTTTT
* * *
3839 AAGTCCACAATTACGTGGCA-CTTTTTTCTTTT
1 AAGTCCACAACTCCGTGGCATC-CTTTTCTTTT
* *
3871 CAAAGTCTACAACTCTGTGGCATCCTTTTCCTTTT
1 --AAGTCCACAACTCCGTGGCATCCTTTT-CTTTT
*
3906 AAGTCCACAACCCCGTGGCA
1 AAGTCCACAACTCCGTGGCA
3926 CCCCCTTCTA
Statistics
Matches: 124, Mismatches: 22, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
32 50 0.40
33 27 0.22
34 41 0.33
35 6 0.05
ACGTcount: A:0.22, C:0.29, G:0.14, T:0.36
Consensus pattern (32 bp):
AAGTCCACAACTCCGTGGCATCCTTTTCTTTT
Found at i:3841 original size:34 final size:34
Alignment explanation
Indices: 3802--3926 Score: 139
Period size: 34 Copynumber: 3.7 Consensus size: 34
3792 ATCCTTTTCA
*
3802 TTTAAGCCCACAACTCCGTGGCACTTTTTTTCCT
1 TTTAAGTCCACAACTCCGTGGCACTTTTTTTCCT
* *
3836 TTTAAGTCCACAATTACGTGGCAC-TTTTTT-CT
1 TTTAAGTCCACAACTCCGTGGCACTTTTTTTCCT
* * **
3868 TTTCAAAGTCTACAACTCTGTGGCA-TCCTTTTCCT
1 TTT--AAGTCCACAACTCCGTGGCACTTTTTTTCCT
*
3903 TTTAAGTCCACAACCCCGTGGCAC
1 TTTAAGTCCACAACTCCGTGGCAC
3927 CCCCTTCTAA
Statistics
Matches: 74, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
32 5 0.07
33 23 0.31
34 41 0.55
35 5 0.07
ACGTcount: A:0.21, C:0.30, G:0.13, T:0.37
Consensus pattern (34 bp):
TTTAAGTCCACAACTCCGTGGCACTTTTTTTCCT
Found at i:3979 original size:33 final size:33
Alignment explanation
Indices: 3932--4031 Score: 173
Period size: 33 Copynumber: 3.0 Consensus size: 33
3922 GGCACCCCCT
*
3932 TCTAAAGCCTACACAAGTCGGTGGCAACCATTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
3965 TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
* *
3998 TCTAAAGTCCACACAAGTCGGTGGCAACCCTTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
4031 T
1 T
4032 AAGCCCAATA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 64 1.00
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (33 bp):
TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
Found at i:4140 original size:43 final size:45
Alignment explanation
Indices: 4031--4544 Score: 452
Period size: 43 Copynumber: 10.9 Consensus size: 45
4021 GCAACCCTTC
* *
4031 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC----TCTT
* *
4080 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACC-C-T
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTCTT
* *
4123 TAAGTCCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAACTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC--T--CTT
* * * *
4172 TAAATCCAATGTCACTGGCCTTGAATCAGCACATTGGCA--TTTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTCTT
* *
4215 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGC-AC-----C-TCTT
* **
4267 TAAGCCCAATATCGCTGGCCTTGAATTGGCACATTGGCACCTTTATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC----TCTT
* *
4316 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGAACC-C-T
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTCTT
* * *
4359 TAAGTCCAATATCGCTAGCCGTGAATCAGTACATTGGCACCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA-C--C-TCTT
**
4408 TAAGTCCAATATCGCTGGCCTTGAATCAGCATGTTGCCGC-CTTTTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTG--GCAC-----C-TCTT
* *
4460 TAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCA--TCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTCTT
* *
4503 TATGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCT
4545 TCGTCATCTT
Statistics
Matches: 385, Mismatches: 48, Indels: 68
0.77 0.10 0.14
Matches are distributed among these distances:
43 148 0.38
44 3 0.01
45 2 0.01
46 2 0.01
48 2 0.01
49 146 0.38
50 2 0.01
51 3 0.01
52 77 0.20
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (45 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTCTT
Found at i:4197 original size:92 final size:93
Alignment explanation
Indices: 4031--4594 Score: 606
Period size: 92 Copynumber: 6.0 Consensus size: 93
4021 GCAACCCTTC
*
4031 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-ATCTTTAAGTCCAATGTCGC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTCATCTTTAAGTCCAATGTCGC
*
4095 TGGCCTTGAATCAGCACATTAGCACCCT
66 TGGCCTTGAATCAGCACATTGGCACCCT
* * * *
4123 TAAGTCCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-AACTTTAAATCCAATGTCAC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTCATCTTTAAGTCCAATGTCGC
***
4187 TGGCCTTGAATCAGCACATTGGCATTTT
66 TGGCCTTGAATCAGCACATTGGCACCCT
* * *
4215 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGCCCAATATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-TCATCTTTAAGTCCAATGTC
**
4280 GCTGGCCTTGAATTGGCACATTGGCACCTTTATCTT
64 GCTGGCCTTGAATCAGCACATTGGCACC-----C-T
* * * *
4316 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG-AAC---C--C-TTAAGTCCAATATCGC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTCATCTTTAAGTCCAATGTCGC
* * *
4374 TAGCCGTGAATCAGTACATTGGCACCTTCATCTT
66 TGGCCTTGAATCAGCACATTGGCA-C--C--C-T
* * *
4408 TAAGTCCAATATCGCTGGCCTTGAATCAGCATGTTGCCGCCTTTTTCATCTTTAAGTCCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--TTTCATCTTTAAGTCCAATGTC
* * *
4473 GCTAGCCTTGAATCAGCACATTGGCATCTT
64 GCTGGCCTTGAATCAGCACATTGGCACCCT
* **
4503 TATGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAACCCAATGT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT--TCATCTTT-AAGTCCAATGT
* *
4568 TGTTGGCCTTGAATCAGCACATTGGCA
63 CGCTGGCCTTGAATCAGCACATTGGCA
4595 TTCTTCTCAT
Statistics
Matches: 397, Mismatches: 51, Indels: 44
0.81 0.10 0.09
Matches are distributed among these distances:
92 194 0.49
93 7 0.02
94 1 0.00
95 85 0.21
96 33 0.08
98 2 0.01
100 2 0.01
101 73 0.18
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (93 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTCATCTTTAAGTCCAATGTCGC
TGGCCTTGAATCAGCACATTGGCACCCT
Found at i:4305 original size:144 final size:144
Alignment explanation
Indices: 4122--4648 Score: 637
Period size: 144 Copynumber: 3.6 Consensus size: 144
4112 ATTAGCACCC
* * * * * *
4122 TTAAGTCCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAACTTTAAATCCAATGTCAC
1 TTAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGC
*
4187 TGGCCTTGAATCAGCACATTGGCATTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
66 TGGCCTTGAATCAGCACATTGGCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
*
4252 CGCCTTTGTCATCT
131 CACCTTTGTCATCT
**
4266 TTAAGCCCAATATCGCTGGCCTTGAATTGGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGC
1 TTAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGC
* * * * * * *
4331 TGGCCTTGAATCAGCACATTGGAACCCTTAAGTCCAATATCGCTAGCCGTGAATCAGTACATTGG
66 TGGCCTTGAATCAGCACATTGGCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
4396 CACC--T-TCATCT
131 CACCTTTGTCATCT
* ** * *
4407 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATGTTGCCGCCTTTTTCATCTTTAAGTCCAATGT
1 TTAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC--TTT-ATCTTTAAGTCCAATGT
* *
4472 CGCTAGCCTTGAATCAGCACATTGGCATCTTTATGTCCAATATCGCTGGCCTTGAATCAGCATAT
63 CGCTGGCCTTGAATCAGCACATTGGCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
*
4537 TGGCACCTTCGTCATCT
128 TGGCACCTTTGTCATCT
* * * * * * *
4554 TTAAAACCCAATGTTGTTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATG
1 TT-AAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCA-CCTT-T-ATCTTTAAGTCCAATG
* ** * *
4619 TTGCTAACCGTGAATCAGCACATTGACATC
62 TCGCTGGCCTTGAATCAGCACATTGGCATC
4649 CTTTTTCTTT
Statistics
Matches: 324, Mismatches: 50, Indels: 14
0.84 0.13 0.04
Matches are distributed among these distances:
141 41 0.13
142 1 0.00
143 3 0.01
144 197 0.61
147 10 0.03
148 71 0.22
149 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (144 bp):
TTAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGC
TGGCCTTGAATCAGCACATTGGCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
CACCTTTGTCATCT
Found at i:4503 original size:236 final size:230
Alignment explanation
Indices: 4031--4592 Score: 689
Period size: 236 Copynumber: 2.4 Consensus size: 230
4021 GCAACCCTTC
4031 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCT
* * * * * *
4096 GGCCTTGAATCAGCACATTAGCACCCTTAAGTCCAGTATCGCTGGCCTTGAATCAGCATATTGGC
66 GGCCTTGAATCAGCACATTGGAACCCTTAAGTCCAATATCGCTAGCCGTGAATCAGCACATTGGC
* * *
4161 ACCTTTAACTTTAAATCCAATGTCACTGGCCTTGAATCAGCACATTGGCATTTTTAAGTCCAATA
131 ACCTTCAACTTTAAATCCAATATCACTGGCCTTGAATCAGCACATTGGCATCTTTAAGTCCAATA
* *
4226 TCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTT
196 TCGCTAGCCTTGAATCAGCACATT-G-G----TGTCATCTT
** *
4267 TAAGCCCAATATCGCTGGCCTTGAATTGGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCT
*
4332 GGCCTTGAATCAGCACATTGGAACCCTTAAGTCCAATATCGCTAGCCGTGAATCAGTACATTGGC
66 GGCCTTGAATCAGCACATTGGAACCCTTAAGTCCAATATCGCTAGCCGTGAATCAGCACATTGGC
* * * **
4397 ACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATGTTGCCGCCTTTTTCATCTTTA
131 ACCTTCAACTTTAAATCCAATATCACTGGCCTTGAATCAGCACATTG--G-------CATCTTTA
*
4462 AGTCCAATGTCGCTAGCCTTGAATCAGCACATT-G-G-CATCTT
187 AGTCCAATATCGCTAGCCTTGAATCAGCACATTGGTGTCATCTT
* * **
4503 TATGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAACCCAATGT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT--T-ATCTTT-AAGTCCAATGT
* *
4568 TGTTGGCCTTGAATCAGCACATTGG
62 CGCTGGCCTTGAATCAGCACATTGG
4593 CATTCTTCTC
Statistics
Matches: 283, Mismatches: 30, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
236 204 0.72
237 1 0.00
238 2 0.01
239 6 0.02
240 32 0.11
242 1 0.00
245 37 0.13
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (230 bp):
TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCT
GGCCTTGAATCAGCACATTGGAACCCTTAAGTCCAATATCGCTAGCCGTGAATCAGCACATTGGC
ACCTTCAACTTTAAATCCAATATCACTGGCCTTGAATCAGCACATTGGCATCTTTAAGTCCAATA
TCGCTAGCCTTGAATCAGCACATTGGTGTCATCTT
Found at i:4534 original size:95 final size:96
Alignment explanation
Indices: 4402--4595 Score: 282
Period size: 95 Copynumber: 2.0 Consensus size: 96
4392 TTGGCACCTT
* * ** **
4402 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATGTTGCCGCCTTTTTCATCTTT-AAGTC
1 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGCCACCTTCGTCATCTTTAAAACC
4466 CAATGTCGCTAGCCTTGAATCAGCACATTGG
66 CAATGTCGCTAGCCTTGAATCAGCACATTGG
* *
4497 CATCTTTATGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAACC
1 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGCCACCTTCGTCATCTTTAAAACC
* * *
4562 CAATGTTGTTGGCCTTGAATCAGCACATTGG
66 CAATGTCGCTAGCCTTGAATCAGCACATTGG
4593 CAT
1 CAT
4596 TCTTCTCATC
Statistics
Matches: 87, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
95 53 0.61
96 34 0.39
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.34
Consensus pattern (96 bp):
CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGCCACCTTCGTCATCTTTAAAACC
CAATGTCGCTAGCCTTGAATCAGCACATTGG
Found at i:13183 original size:31 final size:30
Alignment explanation
Indices: 13146--13328 Score: 172
Period size: 31 Copynumber: 6.0 Consensus size: 30
13136 CTTCAAATAC
* *
13146 CTTCTTAAAGTCCACGACTCAGTGGCAATCC
1 CTTCTCAAAGTCCACGACTCAGTGGC-ATCT
*
13177 CTTCTTAAAGTCCACGACTCAGTGGCAATCT
1 CTTCTCAAAGTCCACGACTCAGTGGC-ATCT
* * * *
13208 CTTCTCAAAGCCCACAACTTAGTGTCAT-T
1 CTTCTCAAAGTCCACGACTCAGTGGCATCT
* * *
13237 TTGTCTCAAAGTCCACAACTCAATGGCAT-T
1 CT-TCTCAAAGTCCACGACTCAGTGGCATCT
* *
13267 TTGTCTCAAAGTCCACGACTTAGTGGCATCAT
1 CT-TCTCAAAGTCCACGACTCAGTGGCATC-T
* *
13299 TTTCTTCAAAGTCCACGACTTAGTGGCATC
1 CTTC-TCAAAGTCCACGACTCAGTGGCATC
13329 CTTTTCATTT
Statistics
Matches: 134, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
29 2 0.01
30 51 0.38
31 53 0.40
32 28 0.21
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.30
Consensus pattern (30 bp):
CTTCTCAAAGTCCACGACTCAGTGGCATCT
Found at i:13246 original size:30 final size:30
Alignment explanation
Indices: 13183--13327 Score: 150
Period size: 30 Copynumber: 4.7 Consensus size: 30
13173 ATCCCTTCTT
* * *
13183 AAAGTCCACGACTCAGTGGCAATCTCT-TCTC
1 AAAGTCCACAACTTAGTGGC-AT-TTTGTCTC
* *
13214 AAAGCCCACAACTTAGTGTCATTTTGTCTC
1 AAAGTCCACAACTTAGTGGCATTTTGTCTC
* *
13244 AAAGTCCACAACTCAATGGCATTTTGTCTC
1 AAAGTCCACAACTTAGTGGCATTTTGTCTC
*
13274 AAAGTCCACGACTTAGTGGCATCATTT-TCTTC
1 AAAGTCCACAACTTAGTGGCAT--TTTGTC-TC
*
13306 AAAGTCCACGACTTAGTGGCAT
1 AAAGTCCACAACTTAGTGGCAT
13328 CCTTTTCATT
Statistics
Matches: 98, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
29 2 0.02
30 51 0.52
31 18 0.18
32 27 0.28
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (30 bp):
AAAGTCCACAACTTAGTGGCATTTTGTCTC
Found at i:13382 original size:34 final size:33
Alignment explanation
Indices: 13275--13561 Score: 233
Period size: 34 Copynumber: 8.6 Consensus size: 33
13265 TTTTGTCTCA
* ** * **
13275 AAGTCCACGACTTAGTGGCA-TCATTTTCTTCA
1 AAGTCCACAACTCCGTGGCACTCTTTTTCTTTT
* ** * *
13307 AAGTCCACGACTTAGTGGCA-TCCTTTTCATTT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCTTTT
* *
13339 AAGCCCACAACTCCGTGGCACTTTTTTTCTTTCT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCTTT-T
*
13373 AAGTCCACAACTCCTTGGCACT-TTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCACTCTTTTTC-TTTT
* *
13406 AAAGCCCACAACTCCGTGGCACTCCTTTTTCATTT
1 -AAGTCCACAACTCCGTGGCACT-CTTTTTCTTTT
* * *
13441 AAGCCCACAAATCCGTGGCACTCTTTTTCCTTCT
1 AAGTCCACAACTCCGTGGCACTCTTTTT-CTTTT
* * *
13475 AAGTCCACAACTCTGAGGCA-ACTTTTTCTTTT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCTTTT
* *
13507 CAAAGTCCACAACTCTGTGGCA-TCCTTTTCCTTTT
1 --AAGTCCACAACTCCGTGGCACT-CTTTTTCTTTT
* *
13542 AAGTCCATAACCCCGTGGCA
1 AAGTCCACAACTCCGTGGCA
13562 ACCCCTTCTA
Statistics
Matches: 214, Mismatches: 31, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
32 48 0.22
33 44 0.21
34 103 0.48
35 13 0.06
36 6 0.03
ACGTcount: A:0.22, C:0.30, G:0.13, T:0.35
Consensus pattern (33 bp):
AAGTCCACAACTCCGTGGCACTCTTTTTCTTTT
Found at i:13456 original size:102 final size:101
Alignment explanation
Indices: 13303--13544 Score: 319
Period size: 102 Copynumber: 2.4 Consensus size: 101
13293 CATCATTTTC
* * ** * *
13303 TTCAAAGTCCACGACTTAGTGGCATCC-TTTTCATTTAAGCCCACAACTCCGTGGCACTTTTTTT
1 TTCAAAGCCCACAACTCCGTGGCATCCTTTTTCATTTAAGCCCACAAATCCGTGGCACTCTTTTT
* *
13367 CTTTCTAAGTCCACAACTCCT-TGGC-ACTTTTTTCTT
66 CCTTCTAAGTCCACAACT-CTGAGGCAAC-TTTTTCTT
*
13403 TTTAAAGCCCACAACTCCGTGGCACTCCTTTTTCATTTAAGCCCACAAATCCGTGGCACTCTTTT
1 TTCAAAGCCCACAACTCCGTGGCA-TCCTTTTTCATTTAAGCCCACAAATCCGTGGCACTCTTTT
13468 TCCTTCTAAGTCCACAACTCTGAGGCAACTTTTTCTT
65 TCCTTCTAAGTCCACAACTCTGAGGCAACTTTTTCTT
* * * *
13505 TTCAAAGTCCACAACTCTGTGGCATCCTTTTCCTTTTAAG
1 TTCAAAGCCCACAACTCCGTGGCATCCTTTTTCATTTAAG
13545 TCCATAACCC
Statistics
Matches: 124, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
100 19 0.15
101 19 0.15
102 84 0.68
103 2 0.02
ACGTcount: A:0.21, C:0.30, G:0.12, T:0.37
Consensus pattern (101 bp):
TTCAAAGCCCACAACTCCGTGGCATCCTTTTTCATTTAAGCCCACAAATCCGTGGCACTCTTTTT
CCTTCTAAGTCCACAACTCTGAGGCAACTTTTTCTT
Found at i:13611 original size:33 final size:33
Alignment explanation
Indices: 13568--13667 Score: 173
Period size: 33 Copynumber: 3.0 Consensus size: 33
13558 GGCAACCCCT
13568 TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
*
13601 TCTAAGGCCCACACAAGTCGGTGGCAACCATTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
* *
13634 TCTAAAGTCCACACAAGTCGGTGGCAACCCTTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
13667 T
1 T
13668 AAGCCCAATA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 63 1.00
ACGTcount: A:0.28, C:0.33, G:0.19, T:0.20
Consensus pattern (33 bp):
TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
Found at i:13735 original size:49 final size:49
Alignment explanation
Indices: 13667--14712 Score: 1187
Period size: 49 Copynumber: 21.8 Consensus size: 49
13657 GCAACCCTTC
* *
13667 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
** *
13716 TAAGTCCAATGTCATTGGCCTTGAATCAGCACATTGGCACC-----C-T
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * *
13759 TAAGTCCAGTATCGCTAGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
*
13808 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATT-G-A-C---ATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * * *
13851 TAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCGCCTTTGTCATTTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATCTT
* *
13903 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* *
13952 TAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACC-----C-T
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * *
13995 TAAGTCCAGTATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* *
14044 TAAGTCTAATGTTGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
*
14093 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG---C---ATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * *
14136 TAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCGCCTTTGTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATCTT
* * *
14188 TAAGCCCAATATCGCTGGCCTTGAATTAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* *
14237 TAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCA-C-----CTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * *
14280 TAAGTCCAGTATCGCTGGCCTTGAATCAGCATATTGGCACGTTTATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* *
14329 TAAGTCCTATGTCACTGGCCTTGAATCAGCATATTGGC-CCTTTTATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-TTTATCTT
*
14378 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA----T-T-TT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * * *
14421 TAAGTCCAATATCGTTGGCCTTGAATCAACATATTGGCGCCTTTGTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATCTT
*
14473 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CTTTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTT-ATCTT
* * *
14522 TAAGTCCAATATCGCTGGCCTTGAATCGGCATATTGGCGCCTTTGTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATCTT
* *
14574 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
*
14623 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT--T-ATCTT
** * * *
14675 TAAAACCCAATGTTGTTGGCCTTGAATCAGCACATTGG
1 T-AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGG
14713 TATTCTTCTC
Statistics
Matches: 849, Mismatches: 94, Indels: 104
0.81 0.09 0.10
Matches are distributed among these distances:
43 223 0.26
44 4 0.00
45 1 0.00
46 4 0.00
47 1 0.00
48 5 0.01
49 396 0.47
50 5 0.01
51 10 0.01
52 170 0.20
53 30 0.04
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.33
Consensus pattern (49 bp):
TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
Found at i:13833 original size:92 final size:94
Alignment explanation
Indices: 13667--14712 Score: 1144
Period size: 92 Copynumber: 10.9 Consensus size: 94
13657 GCAACCCTTC
* **
13667 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCATT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCT
13732 GGCCTTGAATCAGCACATTGGCACC-C-T
66 GGCCTTGAATCAGCACATTGGCACCTCTT
* *
13759 TAAGTCCAGTATCGCTAGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCT
*
13824 GGCCTTGAATCAGCACATT-G-ACATCTT
66 GGCCTTGAATCAGCACATTGGCACCTCTT
* * * * *
13851 TAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCGCCTTTGTCATTTTTAAGCCCAATATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATCTTTAAGTCCAATGTC
*
13916 GCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
63 GCTGGCCTTGAATCAGCACATTGGCACC----TCTT
* * * * * *
13952 TAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACC-----C-TTAAGTCCAGTATCACT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCT
*
14011 GGCCTTGAATCAGCATATTGGCACCTTTATCTT
66 GGCCTTGAATCAGCACATTGGCACC----TCTT
* * *
14044 TAAGTCTAATGTTGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCT
14109 GGCCTTGAATCAGCACATTGGCA--TCTT
66 GGCCTTGAATCAGCACATTGGCACCTCTT
* * * *
14136 TAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCGCCTTTGTCATCTTTAAGCCCAATATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATCTTTAAGTCCAATGTC
* *
14201 GCTGGCCTTGAATTAGCATATTGGCACCTTTATCTT
63 GCTGGCCTTGAATCAGCACATTGGCACC----TCTT
* * * * *
14237 TAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCA-C-----CTTTAAGTCCAGTATCGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCT
* *
14296 GGCCTTGAATCAGCATATTGGCACGTTTATCTT
66 GGCCTTGAATCAGCACATTGGCAC----CTCTT
* * *
14329 TAAGTCCTATGTCACTGGCCTTGAATCAGCATATTGGC-CCTTTTATCTTTAAGTCCAATGTCGC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTTATCTTTAAGTCCAATGTCGC
*
14393 TGGCCTTGAATCAGCACATTGGCA--TTTT
65 TGGCCTTGAATCAGCACATTGGCACCTCTT
* * *
14421 TAAGTCCAATATCGTTGGCCTTGAATCAACATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATCTTTAAGTCCAATGTC
14486 GCTGGCCTTGAATCAGCACATTGGCACTTTCATCTT
63 GCTGGCCTTGAATCAGCACATTGGCAC---C-TCTT
* *
14522 TAAGTCCAATATCGCTGGCCTTGAATCGGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATCTTTAAGTCCAATGTC
14587 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
63 GCTGGCCTTGAATCAGCACATTGGCA-C--C-TCTT
**
14623 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAACCCAATGT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT--T-ATCTTT-AAGTCCAATGT
* *
14688 TGTTGGCCTTGAATCAGCACATTGG
62 CGCTGGCCTTGAATCAGCACATTGG
14713 TATTCTTCTC
Statistics
Matches: 832, Mismatches: 73, Indels: 88
0.84 0.07 0.09
Matches are distributed among these distances:
90 2 0.00
91 2 0.00
92 356 0.43
93 9 0.01
94 3 0.00
95 120 0.14
96 1 0.00
97 3 0.00
98 75 0.09
100 3 0.00
101 225 0.27
102 33 0.04
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.33
Consensus pattern (94 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCGCT
GGCCTTGAATCAGCACATTGGCACCTCTT
Found at i:13938 original size:144 final size:143
Alignment explanation
Indices: 13667--14712 Score: 1323
Period size: 144 Copynumber: 7.3 Consensus size: 143
13657 GCAACCCTTC
* * * * **
13667 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCATT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG---C---ATCTTTAAGTCCAATATCGCT
* * * *
13732 GGCCTTGAATCAGCACATTGGC-AC----C--C-TTAAGTCCAGTATCGCTAGCCTTGAATCAGC
60 GGCCTTGAATCAGCATATTGGCGCCTTTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
13789 ATATTGGCACCTTTATCTT
125 ATATTGGCACCTTTATCTT
*
13808 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGACATCTTTAAGTCCAATATCGCTGGCCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTAAGTCCAATATCGCTGGCCTT
* * *
13873 GAATTAGCATATTGGCGCCTTTGTCATTTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATT
66 GAATCAGCATATTGGCGCCTTT-TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
13938 GGCACCTTTATCTT
130 GGCACCTTTATCTT
* * * * *
13952 TAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCCTTAAGTCCAGTATCACTGGCCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTAAGTCCAATATCGCTGGCCTT
* * * *
14017 GAATCAGCATATTGGCACC-TTT-ATCTTTAAGTCTAATGTTGCTGGCCTTGAATCAGCATATTG
66 GAATCAGCATATTGGCGCCTTTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
14080 GCACCTTTATCTT
131 GCACCTTTATCTT
14093 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTAAGTCCAATATCGCTGGCCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTAAGTCCAATATCGCTGGCCTT
* * *
14158 AAATCAGCATATTGGCGCCTTTGTCATCTTTAAGCCCAATATCGCTGGCCTTGAATTAGCATATT
66 GAATCAGCATATTGGCGCCTTT-TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
14223 GGCACCTTTATCTT
130 GGCACCTTTATCTT
* * *
14237 TAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAGTATCGCTGGCCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTAAGTCCAATATCGCTGGCCTT
* * * * *
14302 GAATCAGCATATTGGC-ACGTTT-ATCTTTAAGTCCTATGTCACTGGCCTTGAATCAGCATATTG
66 GAATCAGCATATTGGCGCCTTTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
14365 GC-CCTTTTATCTT
131 GCACC-TTTATCTT
* *
14378 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTTTTAAGTCCAATATCGTTGGCCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTAAGTCCAATATCGCTGGCCTT
* * *
14443 GAATCAACATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATT
66 GAATCAGCATATTGGCGCCTTT-TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
14508 GGCA-CTTTCATCTT
130 GGCACCTTT-ATCTT
* * * *
14522 TAAGTCCAATATCGCTGGCCTTGAATCGGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATT---G-----G-CATCTTTAAGTCCAATATC
* *
14587 GCTGGCCTTGAATCAGCACATTGGCACC--TTCATCTTTAAGTCCAATATCGCTGGCCTTGAATC
57 GCTGGCCTTGAATCAGCATATTGGCGCCTTTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATC
14650 AGCATATTGGCACCTTCGTCATCTT
122 AGCATATTGGCACCTT--T-ATCTT
** * *
14675 TAAAACCCAATGTTGTTGGCCTTGAATCAGCACATTGG
1 T-AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG
14713 TATTCTTCTC
Statistics
Matches: 795, Mismatches: 79, Indels: 57
0.85 0.08 0.06
Matches are distributed among these distances:
135 38 0.05
136 1 0.00
138 1 0.00
140 2 0.00
141 281 0.35
142 7 0.01
143 10 0.01
144 327 0.41
146 1 0.00
147 1 0.00
150 44 0.06
151 5 0.01
152 1 0.00
153 49 0.06
154 27 0.03
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.33
Consensus pattern (143 bp):
TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTAAGTCCAATATCGCTGGCCTT
GAATCAGCATATTGGCGCCTTTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
GCACCTTTATCTT
Found at i:14037 original size:21 final size:21
Alignment explanation
Indices: 13970--14037 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
13960 ATGTCGCTAG
*
13970 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCATATTGGCA
* *
13991 CCCTT-AAGTCCAGTATCACTGG--
1 -CCTTGAA-T-CAGCAT-ATTGGCA
14013 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCATATTGGCA
14034 CCTT
1 CCTT
14038 TATCTTTAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 13
0.66 0.09 0.25
Matches are distributed among these distances:
19 4 0.11
20 5 0.14
21 11 0.31
22 7 0.20
23 4 0.11
24 4 0.11
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (21 bp):
CCTTGAATCAGCATATTGGCA
Found at i:14194 original size:285 final size:287
Alignment explanation
Indices: 13667--14712 Score: 1468
Period size: 285 Copynumber: 3.6 Consensus size: 287
13657 GCAACCCTTC
* * * *
13667 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCATT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC----TCTTTAAGTCCAATATCACT
* *
13732 GGCCTTGAATCAGCACATTGGCACC-----C-TTAAGTCCAGTATCGCTAGCCTTGAATCAGCAT
62 GGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
*
13791 ATTGGCACCTTTATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGACATCTTTAAGT
127 ATTGGCACCTTTATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTAAGT
* *
13856 CCAATATCGCTGGCCTTGAATTAGCATATTGGCGCCTTTGTCATTTTTAAGCCCAATATCGCTGG
192 CCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGCCCAATATCGCTGG
13921 CCTTGAATCAGCATATTGGCACCTTTATCTT
257 CCTTGAATCAGCATATTGGCACCTTTATCTT
* * *
13952 TAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACC-C-TTAAGTCCAGTATCACTGGCC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTCTTTAAGTCCAATATCACTGGCC
* * * *
14015 TTGAATCAGCATATTGGCACCTTTATCTTTAAGTCTAATGTTGCTGGCCTTGAATCAGCATATTG
66 TTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
14080 GCACCTTTATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTAAGTCCAA
131 GCACCTTTATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTAAGTCCAA
*
14145 TATCGCTGGCCTTAAATCAGCATATTGGCGCCTTTGTCATCTTTAAGCCCAATATCGCTGGCCTT
196 TATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGCCCAATATCGCTGGCCTT
*
14210 GAATTAGCATATTGGCACCTTTATCTT
261 GAATCAGCATATTGGCACCTTTATCTT
* * * *
14237 TAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCA-C-CTTTAAGTCCAGTATCGCTGGCC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTCTTTAAGTCCAATATCACTGGCC
* * * * *
14300 TTGAATCAGCATATTGGCACGTTTATCTTTAAGTCCTATGTCACTGGCCTTGAATCAGCATATTG
66 TTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
*
14365 GC-CCTTTTATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTTTTAAGTCCA
131 GCACC-TTTATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTAAGTCCA
* * * *
14429 ATATCGTTGGCCTTGAATCAACATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCT
195 ATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGCCCAATATCGCTGGCCT
*
14494 TGAATCAGCACATTGGCA-CTTTCATCTT
260 TGAATCAGCATATTGGCACCTTT-ATCTT
* * * *
14522 TAAGTCCAATATCGCTGGCCTTGAATCGGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGC-AC-----C-TCTTTAAGTCCAATATC
* *
14587 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
59 ACTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
** * *
14652 CATATTGGCACCTTCGTCATCTTTAAAACCCAATGTTGTTGGCCTTGAATCAGCACATTGG
124 CATATTGGCACCTT--T-ATCTTT-AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG
14713 TATTCTTCTC
Statistics
Matches: 687, Mismatches: 51, Indels: 33
0.89 0.07 0.04
Matches are distributed among these distances:
279 38 0.06
280 1 0.00
284 9 0.01
285 513 0.75
292 1 0.00
294 84 0.12
295 2 0.00
296 1 0.00
297 6 0.01
298 32 0.05
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.33
Consensus pattern (287 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTCTTTAAGTCCAATATCACTGGCC
TTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
GCACCTTTATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTAAGTCCAA
TATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGCCCAATATCGCTGGCCTT
GAATCAGCATATTGGCACCTTTATCTT
Found at i:14273 original size:101 final size:101
Alignment explanation
Indices: 13994--14712 Score: 918
Period size: 101 Copynumber: 7.4 Consensus size: 101
13984 ATTGGCACCC
* * * * * * *
13994 TTAAGTCCAGTATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCTAATGTTGC
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATATCGC
*
14059 TGGCCTTGAATCAGCATATTGGCACC-TT-T-ATCT
66 TGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCT
14092 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG---C---ATCTTTAAGTCCAATATCGC
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATATCGC
*
14151 TGGCCTTAAATCAGCATATTGGCGCCTTTGTCATCT
66 TGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCT
* * * * * *
14187 TTAAGCCCAATATCGCTGGCCTTGAATTAGCATATTGGCACCTTTATCTTTAAGTCCAATGTTGC
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATATCGC
* *
14252 TGGCCTTGAATCAGCACATT---G-----G-CACCT
66 TGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCT
* * * * * * *
14279 TTAAGTCCAGTATCGCTGGCCTTGAATCAGCATATTGGCACGTTTATCTTTAAGTCCTATGTCAC
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATATCGC
14344 TGGCCTTGAATCAGCATATTGGC-CCTTT-T-ATCT
66 TGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCT
*
14377 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA----T-T-TTTAAGTCCAATATCGT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATATCGC
*
14436 TGGCCTTGAATCAACATATTGGCGCCTTTGTCATCT
66 TGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCT
14472 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CTTTCATCTTTAAGTCCAATATCG
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTT-ATCTTTAAGTCCAATATCG
*
14536 CTGGCCTTGAATCGGCATATTGGCGCCTTTGTCATCT
65 CTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCT
*
14573 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGC
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATATCGC
* *
14638 TGGCCTTGAATCAGCATATTGGCACCTTCGTCATCT
66 TGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCT
** * *
14674 TTAAAACCCAATGTTGTTGGCCTTGAATCAGCACATTGG
1 TT-AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG
14713 TATTCTTCTC
Statistics
Matches: 546, Mismatches: 46, Indels: 54
0.85 0.07 0.08
Matches are distributed among these distances:
92 157 0.29
93 9 0.02
94 3 0.01
95 83 0.15
98 77 0.14
100 1 0.00
101 181 0.33
102 35 0.06
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (101 bp):
TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATATCGC
TGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCT
Found at i:18273 original size:19 final size:20
Alignment explanation
Indices: 18249--18300 Score: 88
Period size: 21 Copynumber: 2.6 Consensus size: 20
18239 TAGCCAAACT
18249 TGTATCGATACAC-AAAATA
1 TGTATCGATACACAAAAATA
18268 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC-AAAAATA
18289 TGTATCGATACA
1 TGTATCGATACA
18301 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 13 0.42
21 18 0.58
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.27
Consensus pattern (20 bp):
TGTATCGATACACAAAAATA
Found at i:20544 original size:21 final size:21
Alignment explanation
Indices: 20511--20560 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
20501 TTGCAAGTTG
*
20511 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
20533 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
20554 AAATAAA
1 AAATAAA
20561 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:24489 original size:13 final size:13
Alignment explanation
Indices: 24471--24506 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
24461 CATTTTTCTT
24471 TGTATCGATACAA
1 TGTATCGATACAA
*
24484 TGTATCGATACAC
1 TGTATCGATACAA
*
24497 TATATCGATA
1 TGTATCGATA
24507 TAGGGGGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:26955 original size:20 final size:20
Alignment explanation
Indices: 26930--26986 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
26920 AAAACCCTTA
26930 AAAGTATCGATACATAGTT-C
1 AAAGTATCGATACAT-GTTGC
26950 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTTGC
*
26970 AATGTATCGATACATGT
1 AAAGTATCGATACATGT
26987 CATTGGAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 3 0.09
20 32 0.91
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
AAAGTATCGATACATGTTGC
Found at i:30172 original size:13 final size:13
Alignment explanation
Indices: 30154--30180 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30144 ATTTTAGACA
30154 TGTATCGATACAT
1 TGTATCGATACAT
30167 TGTATCGATACAT
1 TGTATCGATACAT
30180 T
1 T
30181 TATGGTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:30694 original size:22 final size:21
Alignment explanation
Indices: 30649--30687 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
30639 TTAAAATATT
30649 TTTATTAAATAAATAAATAAA
1 TTTATTAAATAAATAAATAAA
*
30670 TTTATTTAAT-AATAAATA
1 TTTATTAAATAAATAAATA
30688 GAAATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TTTATTAAATAAATAAATAAA
Found at i:38886 original size:42 final size:42
Alignment explanation
Indices: 38827--38910 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
38817 GATGGGAACC
38827 TTACCTTGTTTTATCAAAAGTTAGTTTTAAAGGTTAAAAGGT
1 TTACCTTGTTTTATCAAAAGTTAGTTTTAAAGGTTAAAAGGT
38869 TTACCTTGTTTTATCAAAAGTTAGTTTTAAAGGTTAAAAGGT
1 TTACCTTGTTTTATCAAAAGTTAGTTTTAAAGGTTAAAAGGT
38911 AATAACAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (42 bp):
TTACCTTGTTTTATCAAAAGTTAGTTTTAAAGGTTAAAAGGT
Found at i:39249 original size:17 final size:18
Alignment explanation
Indices: 39227--39261 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
39217 ATTGAAACAT
*
39227 TGAAAAGTTT-AATCTAA
1 TGAAAAATTTAAATCTAA
39244 TGAAAAATTTAAATCTAA
1 TGAAAAATTTAAATCTAA
39262 CGATATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (18 bp):
TGAAAAATTTAAATCTAA
Found at i:42695 original size:24 final size:25
Alignment explanation
Indices: 42663--42709 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
42653 AAAAATACTA
*
42663 TTTTTTATTTA-AGAGAAATTATCT
1 TTTTTTATTGATAGAGAAATTATCT
*
42687 TTTTTTATTGATAGTGAAATTAT
1 TTTTTTATTGATAGAGAAATTAT
42710 TAAATTTTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.55
Consensus pattern (25 bp):
TTTTTTATTGATAGAGAAATTATCT
Found at i:43101 original size:2 final size:2
Alignment explanation
Indices: 43091--43220 Score: 86
Period size: 2 Copynumber: 70.0 Consensus size: 2
43081 GTAAATTTTT
* *
43091 TA TA T- TA TA TA TA TA TA TA T- TA TA T- TA TA TG T- TG TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
43128 TA TA TA TA TA TA TA TA T- TA TG T- TA TA T- TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
43167 AA CA TC TA TA TA TA TA TA GTC TA TA TA TA -A TA TA -A TA CA TGA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA T-A
43209 -A TA -A TA TA TA TA
1 TA TA TA TA TA TA TA
43221 ACATATAATA
Statistics
Matches: 102, Mismatches: 12, Indels: 28
0.72 0.08 0.20
Matches are distributed among these distances:
1 12 0.12
2 88 0.86
3 2 0.02
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (2 bp):
TA
Found at i:43149 original size:27 final size:30
Alignment explanation
Indices: 43098--43166 Score: 108
Period size: 27 Copynumber: 2.4 Consensus size: 30
43088 TTTTATATTA
*
43098 TATATATATATATTATATTATATGTTGTAT
1 TATATATATATATTATATTATATGTTATAT
43128 TATATATATATA-TATA-T-TATGTTATAT
1 TATATATATATATTATATTATATGTTATAT
43155 TATATATATATA
1 TATATATATATA
43167 AACATCTATA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
27 21 0.55
28 1 0.03
29 4 0.11
30 12 0.32
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (30 bp):
TATATATATATATTATATTATATGTTATAT
Found at i:43180 original size:27 final size:27
Alignment explanation
Indices: 43125--43196 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
43115 TTATATGTTG
* * *
43125 TATTATATATATATATATATTATGTTA
1 TATTATATATATATAAACATTATGATA
43152 TATTATATATATATAAACATCTAT-ATA
1 TATTATATATATATAAACAT-TATGATA
*
43179 TATATAGTCTATATATAA
1 TAT-TA-TATATATATAA
43197 TATAATACAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
27 23 0.61
28 5 0.13
29 10 0.26
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (27 bp):
TATTATATATATATAAACATTATGATA
Found at i:46806 original size:89 final size:89
Alignment explanation
Indices: 46646--47595 Score: 1186
Period size: 89 Copynumber: 10.7 Consensus size: 89
46636 TCTGTTGTAT
* * * * *
46646 CATTAGTCAAATATTTTTTGTCGTGTCAGAAGGAATCTAATACCCACATGTATCTGTCACATTTT
1 CATTAGTCAAATATTTTCTGTCGTGTCAGAAGGAATCTGATACCCGCATGCATCTGTCACATCTT
*
46711 TTGGGTTTCAAGAAATTTATTAGG
66 TCGGGTTTCAAGAAATTTATTAGG
* * *
46735 CATTAGTCAAATATTTTTTATCGTGTCAGAAGGAATCTGATACCCGTATGCATCTGTCACATCTT
1 CATTAGTCAAATATTTTCTGTCGTGTCAGAAGGAATCTGATACCCGCATGCATCTGTCACATCTT
*
46800 TCGGGTTTCAAGAAATTTATTACG
66 TCGGGTTTCAAGAAATTTATTAGG
* * * * * *
46824 TATTAGTCAAATATTTTCTGCCGTGTCAAAAAGAATCTGATACCTGCATGCATCTATCACATCTT
1 CATTAGTCAAATATTTTCTGTCGTGTCAGAAGGAATCTGATACCCGCATGCATCTGTCACATCTT
*
46889 TCAGGTTTCAAGAAATTTATTAGG
66 TCGGGTTTCAAGAAATTTATTAGG
* * * *
46913 CATTAGTTAAATATTTTCTGCCATGTCAGAAGGAATCTGATACCCGCATACATCTGTCACATCTT
1 CATTAGTCAAATATTTTCTGTCGTGTCAGAAGGAATCTGATACCCGCATGCATCTGTCACATCTT
* *
46978 TCGGGTTCCAAGAAATTTATTTGG
66 TCGGGTTTCAAGAAATTTATTAGG
* * * * *
47002 CATTAGTAAAATATTTTCTGTCGTGTCAGAAAGAATCTGATGCCCGCATGTATCTGTCATATCTT
1 CATTAGTCAAATATTTTCTGTCGTGTCAGAAGGAATCTGATACCCGCATGCATCTGTCACATCTT
47067 TCGGG-TTCTAAGAAATTTATTAGG
66 TCGGGTTTC-AAGAAATTTATTAGG
* * * * *
47091 CATTAGTCAAATATTTTCTTTCGTGTTAGGAGGAATCTGATACTCGCATGCATTTGTCACATCTT
1 CATTAGTCAAATATTTTCTGTCGTGTCAGAAGGAATCTGATACCCGCATGCATCTGTCACATCTT
*
47156 TCAGGTTTCAAGAAATTTATTAGG
66 TCGGGTTTCAAGAAATTTATTAGG
* * * *
47180 CATTAGTCAAATATTTTCTGTCGTGTCAAAAGGAATCTGATATCTGCATGCATCTGTCACATATT
1 CATTAGTCAAATATTTTCTGTCGTGTCAGAAGGAATCTGATACCCGCATGCATCTGTCACATCTT
47245 TCGGG-TTCTAAGAAATTTATTAGG
66 TCGGGTTTC-AAGAAATTTATTAGG
* * * ** *
47269 CATTAGTCAAATATTTTCTATCGTGTTAAAAGGAATCTGATACCCATATGCATCTATCA-ATACC
1 CATTAGTCAAATATTTTCTGTCGTGTCAGAAGGAATCTGATACCCGCATGCATCTGTCACAT--C
* * *
47333 TTTCCGATTCCAAGAAATTTATTAGG
64 TTTCGGGTTTCAAGAAATTTATTAGG
* * * * * * *
47359 TATTAGTTAAATATTTTTTATCGTGTCAGAAGGAATCTGATACCTGCATGCATCTGTCACGTATT
1 CATTAGTCAAATATTTTCTGTCGTGTCAGAAGGAATCTGATACCCGCATGCATCTGTCACATCTT
* * * * *
47424 TTGGGTTCCAAAAAAATTATTAGA
66 TCGGGTTTCAAGAAATTTATTAGG
* ** * * *
47448 CATTAATCAAATATTTTCTGTAATGTCAGAAAGAATCTAATACCCGCATGCATCTATCACATCTT
1 CATTAGTCAAATATTTTCTGTCGTGTCAGAAGGAATCTGATACCCGCATGCATCTGTCACATCTT
* *
47513 TCGAGTTCCAAGAAATTTATTAGG
66 TCGGGTTTCAAGAAATTTATTAGG
* * * * * *
47537 CATTAGTCAAATATTTTCTGTCATGTCAAAAAGAATCTGATACTCGCATGAATTTGTCA
1 CATTAGTCAAATATTTTCTGTCGTGTCAGAAGGAATCTGATACCCGCATGCATCTGTCA
47596 ACCTAATATT
Statistics
Matches: 739, Mismatches: 115, Indels: 14
0.85 0.13 0.02
Matches are distributed among these distances:
88 7 0.01
89 656 0.89
90 73 0.10
91 3 0.00
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (89 bp):
CATTAGTCAAATATTTTCTGTCGTGTCAGAAGGAATCTGATACCCGCATGCATCTGTCACATCTT
TCGGGTTTCAAGAAATTTATTAGG
Found at i:47708 original size:5 final size:5
Alignment explanation
Indices: 47700--47779 Score: 55
Period size: 5 Copynumber: 16.0 Consensus size: 5
47690 AATAAATAAA
47700 ATATT ATATGT -TA-T ATATT ATA-T ATTATAT ATTATT ATATT ATATT
1 ATATT ATAT-T ATATT ATATT ATATT A-TAT-T A-TATT ATATT ATATT
*
47746 ATGA-T ATATT ATATAT CTATT ATA-T ATA-T ATATT
1 AT-ATT ATATT ATAT-T ATATT ATATT ATATT ATATT
47780 TATGTTAATA
Statistics
Matches: 63, Mismatches: 2, Indels: 20
0.74 0.02 0.24
Matches are distributed among these distances:
3 1 0.02
4 13 0.21
5 35 0.56
6 8 0.13
7 6 0.10
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (5 bp):
ATATT
Found at i:47715 original size:7 final size:7
Alignment explanation
Indices: 47700--47794 Score: 102
Period size: 7 Copynumber: 12.9 Consensus size: 7
47690 AATAAATAAA
47700 ATATTAT
1 ATATTAT
*
47707 ATGTTAT
1 ATATTAT
47714 ATATTAT
1 ATATTAT
47721 ATATTAT
1 ATATTAT
47728 ATATTATT
1 ATATTA-T
47736 ATATTAT
1 ATATTAT
*
47743 ATTATGAT
1 A-TATTAT
47751 ATATTAT
1 ATATTAT
47758 ATATCTATT
1 ATAT-TA-T
47767 ATATATAT
1 ATAT-TAT
47775 ATATT-T
1 ATATTAT
*
47781 ATGTTAAT
1 ATATT-AT
47789 ATATTA
1 ATATTA
47795 GGAAAACTTG
Statistics
Matches: 75, Mismatches: 7, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
6 5 0.07
7 38 0.51
8 25 0.33
9 7 0.09
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (7 bp):
ATATTAT
Found at i:47792 original size:2 final size:2
Alignment explanation
Indices: 47711--47778 Score: 62
Period size: 2 Copynumber: 37.5 Consensus size: 2
47701 TATTATATGT
47711 TA TA TA T- TA TA TA T- TA TA TA T- TA T- TA TA T- TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
47747 TGA TA TA T- TA TA TA TC TA T- TA TA TA TA TA TA T
1 T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
47779 TTATGTTAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 18
0.73 0.03 0.24
Matches are distributed among these distances:
1 8 0.15
2 45 0.82
3 2 0.04
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (2 bp):
TA
Found at i:48068 original size:13 final size:13
Alignment explanation
Indices: 48050--48092 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
48040 TTTTTAACAC
48050 ATTTTAAAAATAA
1 ATTTTAAAAATAA
48063 ATTTTAAAAAAGTATA
1 ATTTT-AAAAA-TA-A
*
48079 ATTTAAAAAATAA
1 ATTTTAAAAATAA
48092 A
1 A
48093 AAATAATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 7 0.27
14 7 0.27
15 7 0.27
16 5 0.19
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (13 bp):
ATTTTAAAAATAA
Found at i:54783 original size:14 final size:14
Alignment explanation
Indices: 54766--54830 Score: 59
Period size: 14 Copynumber: 5.0 Consensus size: 14
54756 ACTTTTTCTT
*
54766 TTTCTTTCCTTTCC
1 TTTCTTTACTTTCC
54780 TTTCTTTACTTTCC
1 TTTCTTTACTTTCC
*
54794 CTT-TTT-C-TT--
1 TTTCTTTACTTTCC
* *
54803 TTTCTTTCCCTTCC
1 TTTCTTTACTTTCC
54817 TTTCTTTACTTTCC
1 TTTCTTTACTTTCC
54831 CTTTTCATAC
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
9 2 0.05
10 3 0.07
11 3 0.07
12 3 0.07
13 3 0.07
14 27 0.66
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTCTTTACTTTCC
Found at i:54798 original size:37 final size:37
Alignment explanation
Indices: 54752--54835 Score: 150
Period size: 37 Copynumber: 2.3 Consensus size: 37
54742 CTTTCTATTT
* *
54752 TTTCACTTTTTCTTTTTCTTTCCTTTCCTTTCTTTAC
1 TTTCCCTTTTTCTTTTTCTTTCCCTTCCTTTCTTTAC
54789 TTTCCCTTTTTCTTTTTCTTTCCCTTCCTTTCTTTAC
1 TTTCCCTTTTTCTTTTTCTTTCCCTTCCTTTCTTTAC
54826 TTTCCCTTTT
1 TTTCCCTTTT
54836 CATACCTTGA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.04, C:0.30, G:0.00, T:0.67
Consensus pattern (37 bp):
TTTCCCTTTTTCTTTTTCTTTCCCTTCCTTTCTTTAC
Found at i:55559 original size:22 final size:22
Alignment explanation
Indices: 55525--55569 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
55515 GAGTTAGTTC
55525 AAATGTTTTTCAAGTAATAAATA
1 AAATGTTTTTCAAGTAA-AAATA
55548 AAATG-TTTTCAAGTAAAAATA
1 AAATGTTTTTCAAGTAAAAATA
55569 A
1 A
55570 TTCAAAGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 6 0.27
22 11 0.50
23 5 0.23
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.36
Consensus pattern (22 bp):
AAATGTTTTTCAAGTAAAAATA
Found at i:55599 original size:20 final size:20
Alignment explanation
Indices: 55574--55624 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
55564 AAATAATTCA
*
55574 AAGTATCGATATATAGGTAT
1 AAGTATCGATATATAGGCAT
55594 AAGTATCGATATATAGGCAT
1 AAGTATCGATATATAGGCAT
**
55614 TTGTATCGATA
1 AAGTATCGATA
55625 CATAAAGGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (20 bp):
AAGTATCGATATATAGGCAT
Found at i:55725 original size:13 final size:13
Alignment explanation
Indices: 55707--55731 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55697 ATATTGCTTA
55707 GTATCGATACATT
1 GTATCGATACATT
55720 GTATCGATACAT
1 GTATCGATACAT
55732 GTTCTTGGTA
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:55748 original size:32 final size:33
Alignment explanation
Indices: 55686--55750 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
55676 CACACCCAGA
55686 TGTATCGATACATATTGCTTAGTATCGATACAT
1 TGTATCGATACATATTGCTTAGTATCGATACAT
* *
55719 TGTATCGATACATGTT-CTTGGTATCGATACAT
1 TGTATCGATACATATTGCTTAGTATCGATACAT
55751 ATTAAATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATATTGCTTAGTATCGATACAT
Found at i:55764 original size:20 final size:18
Alignment explanation
Indices: 55717--55767 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
55707 GTATCGATAC
*
55717 ATTGTATCGATACATGTT
1 ATTGTATCGATACATATT
*
55735 CTTGGTATCGATACATATT
1 ATT-GTATCGATACATATT
55754 AAATTGTATCGATA
1 --ATTGTATCGATA
55768 TATGAAACTG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 2 0.07
19 14 0.52
20 9 0.33
21 2 0.07
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (18 bp):
ATTGTATCGATACATATT
Found at i:57391 original size:3 final size:3
Alignment explanation
Indices: 57372--57408 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
57362 TCAACAATCA
* *
57372 ATG ATG GTG AAG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
57409 AGTTGACTCG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.30
Consensus pattern (3 bp):
ATG
Found at i:61683 original size:21 final size:23
Alignment explanation
Indices: 61659--61709 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
61649 TTTGTGATTT
61659 TTTAAATGTTGAT--ATATTG-TG
1 TTTAAATGTTGATGAAT-TTGATG
*
61680 TTTAATTGTTGATGAATTTGATG
1 TTTAAATGTTGATGAATTTGATG
61703 TTTAAAT
1 TTTAAAT
61710 ATGTTGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 12 0.48
22 3 0.12
23 10 0.40
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (23 bp):
TTTAAATGTTGATGAATTTGATG
Found at i:61898 original size:13 final size:13
Alignment explanation
Indices: 61880--61904 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61870 AAAGTTTTTA
61880 GTATCGATACATT
1 GTATCGATACATT
61893 GTATCGATACAT
1 GTATCGATACAT
61905 GGGTACTATT
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:63707 original size:36 final size:36
Alignment explanation
Indices: 63642--63710 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
63632 TGCTTTCATG
*
63642 AATGTTTGCCTTCTTATTTTTTTCATGAATGCAATT
1 AATGTTTGCCTTCATATTTTTTTCATGAATGCAATT
* *
63678 AATGTTTGCCTTGATATTATTTTT-GTGAATGCA
1 AATGTTTGCCTTCATATT-TTTTTCATGAATGCA
63711 TAGGGGAGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
36 24 0.83
37 5 0.17
ACGTcount: A:0.23, C:0.12, G:0.14, T:0.51
Consensus pattern (36 bp):
AATGTTTGCCTTCATATTTTTTTCATGAATGCAATT
Found at i:64739 original size:33 final size:33
Alignment explanation
Indices: 64697--64762 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
64687 CATACCCAGA
64697 TGTATCGATACATATTGCTTAGTATCAATACAT
1 TGTATCGATACATATTGCTTAGTATCAATACAT
*
64730 TGTATCGATACATATTGCTTAGTATCGATACAT
1 TGTATCGATACATATTGCTTAGTATCAATACAT
64763 GTTCTTGGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATATTGCTTAGTATCAATACAT
Found at i:64775 original size:19 final size:20
Alignment explanation
Indices: 64698--64784 Score: 91
Period size: 20 Copynumber: 4.8 Consensus size: 20
64688 ATACCCAGAT
64698 GTATCGATACATATTGCTTA
1 GTATCGATACATATTGCTTA
*
64718 GTATCAATAC--A----TT-
1 GTATCGATACATATTGCTTA
64731 GTATCGATACATATTGCTTA
1 GTATCGATACATATTGCTTA
* *
64751 GTATCGATACATGTT-CTTG
1 GTATCGATACATATTGCTTA
64770 GTATCGATACATATT
1 GTATCGATACATATT
64785 AAATTGTATC
Statistics
Matches: 55, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
13 9 0.16
14 2 0.04
15 1 0.02
18 1 0.02
19 19 0.35
20 23 0.42
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (20 bp):
GTATCGATACATATTGCTTA
Found at i:64795 original size:20 final size:19
Alignment explanation
Indices: 64731--64801 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 19
64721 TCAATACATT
*
64731 GTATCGATACATATTGCTTA
1 GTATCGATACATATT-ATTA
* * *
64751 GTATCGATACATGTTCTTG
1 GTATCGATACATATTATTA
64770 GTATCGATACATATTAAATT-
1 GTATCGATACATATT--ATTA
64790 GTATCGATACAT
1 GTATCGATACAT
64802 GAAACTGGCA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
19 17 0.38
20 26 0.58
21 2 0.04
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.39
Consensus pattern (19 bp):
GTATCGATACATATTATTA
Found at i:67798 original size:14 final size:13
Alignment explanation
Indices: 67781--67815 Score: 61
Period size: 13 Copynumber: 2.6 Consensus size: 13
67771 TTTATGATTA
67781 TTAATTTTAATTTT
1 TTAATTTTAA-TTT
67795 TTAATTTTAATTT
1 TTAATTTTAATTT
67808 TTAATTTT
1 TTAATTTT
67816 CTTTTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTAATTTTAATTT
Found at i:67822 original size:14 final size:13
Alignment explanation
Indices: 67781--67823 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
67771 TTTATGATTA
67781 TTAATTTTAATTTT
1 TTAATTTT-ATTTT
*
67795 TTAATTTTAATTT
1 TTAATTTTATTTT
*
67808 TTAATTTTCTTTT
1 TTAATTTTATTTT
67821 TTA
1 TTA
67824 TTAGTTTCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 18 0.69
14 8 0.31
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (13 bp):
TTAATTTTATTTT
Found at i:74291 original size:150 final size:150
Alignment explanation
Indices: 74020--74328 Score: 609
Period size: 150 Copynumber: 2.1 Consensus size: 150
74010 AGAAATTGAA
74020 GAATTGATGGCCAAAAGCATGATCGGGAGAGTATAACTCCTTGCCTTGTCTTAACTTTCTTGGTT
1 GAATTGATGGCCAAAAGCATGATCGGGAGAGTATAACTCCTTGCCTTGTCTTAACTTTCTTGGTT
74085 CCAAAAAAAGATGATTCATGGCATATATGTGTGGATGGCAAGGCAGTAAACAAGATAATTGTGGA
66 CCAAAAAAAGATGATTCATGGCATATATGTGTGGATGGCAAGGCAGTAAACAAGATAATTGTGGA
74150 CTATTGATTTTCTATTCCGT
131 CTATTGATTTTCTATTCCGT
74170 GAATTGATGGCCAAAAGCATGATCGGGAGAGTATAACTCCTTGCCTTGTCTTAACTTTCTTGGTT
1 GAATTGATGGCCAAAAGCATGATCGGGAGAGTATAACTCCTTGCCTTGTCTTAACTTTCTTGGTT
74235 CCAAAAAAAGATGATTCATGGCATATATGTGTGGATGGCAAGGCAGTAAACAAGATAATTGTGGA
66 CCAAAAAAAGATGATTCATGGCATATATGTGTGGATGGCAAGGCAGTAAACAAGATAATTGTGGA
74300 CTATTGATTTTCTATTCCGT
131 CTATTGATTTTCTATTCCGT
*
74320 GACTTGATG
1 GAATTGATG
74329 ACCTTCATAA
Statistics
Matches: 158, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 158 1.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (150 bp):
GAATTGATGGCCAAAAGCATGATCGGGAGAGTATAACTCCTTGCCTTGTCTTAACTTTCTTGGTT
CCAAAAAAAGATGATTCATGGCATATATGTGTGGATGGCAAGGCAGTAAACAAGATAATTGTGGA
CTATTGATTTTCTATTCCGT
Found at i:75101 original size:22 final size:21
Alignment explanation
Indices: 75068--75113 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
75058 GTTAGGTAAA
*
75068 TTTTATTTTTCTGTAATTTCT
1 TTTTATTTTTCTGTAAGTTCT
* *
75089 TTTTTTTTCTTCTGTCAGTTCT
1 TTTTATTT-TTCTGTAAGTTCT
75111 TTT
1 TTT
75114 GTTCCCAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.09, C:0.13, G:0.07, T:0.72
Consensus pattern (21 bp):
TTTTATTTTTCTGTAAGTTCT
Found at i:76750 original size:13 final size:13
Alignment explanation
Indices: 76732--76757 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
76722 CAATTTTTTG
76732 TGTATCGATACAT
1 TGTATCGATACAT
76745 TGTATCGATACAT
1 TGTATCGATACAT
76758 ACTTTGTGTA
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:76769 original size:32 final size:33
Alignment explanation
Indices: 76712--76775 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
76702 TACAGGCCAA
**
76712 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
76745 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
76776 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:77448 original size:40 final size:41
Alignment explanation
Indices: 77402--77492 Score: 107
Period size: 39 Copynumber: 2.3 Consensus size: 41
77392 TTTTCTTTCT
*
77402 CCCTTAACTAAAG-TAATTTTAACAAATTCATACATTCTCC
1 CCCTTAACTAAAGATAATTTTAACAAATTCACACATTCTCC
* * *
77442 CCCTTAA-T-AAGATAATTTTAGCAAATTTACGCATTCTCC
1 CCCTTAACTAAAGATAATTTTAACAAATTCACACATTCTCC
* *
77481 CCTTTTACTAAA
1 CCCTTAACTAAA
77493 AAAAATCTCC
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
38 3 0.07
39 29 0.69
40 8 0.19
41 2 0.05
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.36
Consensus pattern (41 bp):
CCCTTAACTAAAGATAATTTTAACAAATTCACACATTCTCC
Found at i:79344 original size:13 final size:13
Alignment explanation
Indices: 79326--79363 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
79316 ATAATCCCCT
79326 TGTATCGATACAG
1 TGTATCGATACAG
*
79339 TGTATCGATACAT
1 TGTATCGATACAG
79352 TGTATCGATACA
1 TGTATCGATACA
79364 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:85487 original size:20 final size:20
Alignment explanation
Indices: 85462--85513 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
85452 TACAGGCCAA
**
85462 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTTG
85482 TGTATCGATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
85501 TGTATCGATACAA
1 TGTATCGATACAA
85514 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:87205 original size:162 final size:157
Alignment explanation
Indices: 87015--87466 Score: 724
Period size: 152 Copynumber: 2.9 Consensus size: 157
87005 TATTGTAAGT
* *
87015 ATTTACAATATATATATATATGCACCAATAGAAAATAGCTTTAACAATCTTATTATAATTTT-AG
1 ATTTACAATATATATATATATACACCAATAGAAAATAACTTTAACAATCTTATTATAATTTTGA-
87079 ACATTAATAATAATAATAATTATTATTATTATTATTATAAACTAAAAAACCTACAACAGCAAACA
65 ACA-T--TAATAATAATAATTATTATTATTATTATTATAAACTAAAAAACCTACAACAGCAAACA
87144 AATCACATGTCAACAGCAAACATTAATAATA
127 AATCACATGTCAACAGCAAACATTAATAATA
87175 ATTTACAATATATATATATATATACACCAATAGAAAATAACTTTAACAATCTTATTATAATTTTG
1 ATTTAC-A-ATATATATATATATACACCAATAGAAAATAACTTTAACAATCTTATTATAATTTTG
87240 AACATTAATAATAATAA-TA--ATTATTATTATTATAAACTAAAAAACCTACAACAGCAAACAAA
64 AACATTAATAATAATAATTATTATTATTATTATTATAAACTAAAAAACCTACAACAGCAAACAAA
87302 TCACATGTCAACAGCAAACATTAATAATA
129 TCACATGTCAACAGCAAACATTAATAATA
* * *
87331 ATTTAC-A-ATATATATATATACACCAATAAAAAAGAACTTTAATAATCTTATTATAATTTTGAA
1 ATTTACAATATATATATATATACACCAATAGAAAATAACTTTAACAATCTTATTATAATTTTGAA
* *
87394 CATCAATAAT--T-ATTATTATTATTATTATTATAAACTAAAAAACCTACAACAGTAAACAAATC
66 CATTAATAATAATAATTATTATTATTATTATTATAAACTAAAAAACCTACAACAGCAAACAAATC
87456 ACATGTCAACA
131 ACATGTCAACA
87467 ACAATTTCAC
Statistics
Matches: 279, Mismatches: 7, Indels: 20
0.91 0.02 0.07
Matches are distributed among these distances:
149 1 0.00
150 3 0.01
152 117 0.42
153 1 0.00
156 78 0.28
158 2 0.01
159 12 0.04
160 6 0.02
161 2 0.01
162 56 0.20
163 1 0.00
ACGTcount: A:0.50, C:0.13, G:0.04, T:0.33
Consensus pattern (157 bp):
ATTTACAATATATATATATATACACCAATAGAAAATAACTTTAACAATCTTATTATAATTTTGAA
CATTAATAATAATAATTATTATTATTATTATTATAAACTAAAAAACCTACAACAGCAAACAAATC
ACATGTCAACAGCAAACATTAATAATA
Found at i:94419 original size:40 final size:40
Alignment explanation
Indices: 94363--94470 Score: 162
Period size: 40 Copynumber: 2.7 Consensus size: 40
94353 AATGCCACTA
94363 AAAAATTGCCACTAAATTTAAGTAATTAGCAGCGTTTATAG
1 AAAAA-TGCCACTAAATTTAAGTAATTAGCAGCGTTTATAG
* *
94404 AAAAATGCCATTAAATTTAAGTAATTAGCAGTGTTTATAG
1 AAAAATGCCACTAAATTTAAGTAATTAGCAGCGTTTATAG
* * *
94444 AAAAACGTCACTAATTTTAAGTAATTA
1 AAAAATGCCACTAAATTTAAGTAATTA
94471 TCGACGTTTT
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
40 56 0.92
41 5 0.08
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (40 bp):
AAAAATGCCACTAAATTTAAGTAATTAGCAGCGTTTATAG
Found at i:96846 original size:20 final size:20
Alignment explanation
Indices: 96801--96852 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
96791 GTAGCCAAAC
**
96801 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
96821 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
96840 TTGTATCGATACA
1 TTGTATCGATACA
96853 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:98091 original size:32 final size:33
Alignment explanation
Indices: 98050--98111 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
98040 CAATTCAGTG
*
98050 TGTATCGATACCAAG-AACATGTATCAATATAA
1 TGTATCGATACAAAGCAACATGTATCAATATAA
*
98082 TGTATCGATACAAAGCAATATGTATCAATA
1 TGTATCGATACAAAGCAACATGTATCAATA
98112 CATCTGGGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.29
Consensus pattern (33 bp):
TGTATCGATACAAAGCAACATGTATCAATATAA
Found at i:105934 original size:3 final size:3
Alignment explanation
Indices: 105926--105971 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
105916 CAAGTCAACT
105926 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
105972 TGATGGTTGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:106398 original size:21 final size:19
Alignment explanation
Indices: 106372--106425 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
106362 TTCTATAATT
106372 TGTATCGATACAAATAGTAAA
1 TGTATCGATACAAA-AGT-AA
* **
106393 TGTATCGATACATAAGTTT
1 TGTATCGATACAAAAGTAA
106412 TGTATCGATACAAA
1 TGTATCGATACAAA
106426 GCCACCCTGC
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 (19 bp):
TGTATCGATACAAAAGTAA
Found at i:106417 original size:19 final size:21
Alignment explanation
Indices: 106369--106425 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
106359 AATTTCTATA
106369 ATTTGTATCGATACAAATAGT
1 ATTTGTATCGATACAAATAGT
** *
106390 AAATGTATCGATACATA-AGT
1 ATTTGTATCGATACAAATAGT
106410 -TTTGTATCGATACAAA
1 ATTTGTATCGATACAAA
106426 GCCACCCTGC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 13 0.43
20 3 0.10
21 14 0.47
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (21 bp):
ATTTGTATCGATACAAATAGT
Found at i:116989 original size:13 final size:13
Alignment explanation
Indices: 116971--116996 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
116961 TACACCAAGT
116971 ATGTATCGATACA
1 ATGTATCGATACA
116984 ATGTATCGATACA
1 ATGTATCGATACA
116997 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:116993 original size:32 final size:33
Alignment explanation
Indices: 116953--117016 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
116943 TAGCCAAACT
* **
116953 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
116985 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
117017 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:119256 original size:21 final size:21
Alignment explanation
Indices: 119223--119267 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
119213 TTGCAAGTTG
*
119223 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
119245 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
119265 AAA
1 AAA
119268 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:121091 original size:15 final size:15
Alignment explanation
Indices: 121071--121101 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
121061 TAAAAATGTC
*
121071 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
121086 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
121101 C
1 C
121102 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:123369 original size:20 final size:20
Alignment explanation
Indices: 123326--123371 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
123316 AAATCTTTTG
123326 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
123347 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
123367 CAAAA
1 CAAAA
123372 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:125770 original size:13 final size:13
Alignment explanation
Indices: 125752--125777 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
125742 TACACCAAGT
125752 ATGTATCGATACA
1 ATGTATCGATACA
125765 ATGTATCGATACA
1 ATGTATCGATACA
125778 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:125775 original size:32 final size:33
Alignment explanation
Indices: 125734--125797 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
125724 TAGCCAAACT
* **
125734 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
125766 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
125798 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:131742 original size:14 final size:13
Alignment explanation
Indices: 131723--131771 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 13
131713 CGTCCTCTGC
131723 AAAAAAATAAAAA
1 AAAAAAATAAAAA
131736 TAAAAAAATAAAAA
1 -AAAAAAATAAAAA
*
131750 AACAAAAA-ACAAAC
1 AA-AAAAATA-AAAA
131764 AAAAAAAT
1 AAAAAAAT
131772 GGGGGAAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
13 8 0.26
14 23 0.74
ACGTcount: A:0.86, C:0.06, G:0.00, T:0.08
Consensus pattern (13 bp):
AAAAAAATAAAAA
Found at i:133150 original size:32 final size:31
Alignment explanation
Indices: 133111--133388 Score: 306
Period size: 32 Copynumber: 8.7 Consensus size: 31
133101 ATCCCTTCTC
133111 AAAGCCCACACAAGTTGGTGGCAACCCTTTTT
1 AAAGCCCACACAAGTTGGTGGCAA-CCTTTTT
* * *
133143 AATGCCCACACAAGTTGATGGTAACCTTCTTT
1 AAAGCCCACACAAGTTGGTGGCAACCTT-TTT
* * *
133175 AAAACCCAGACAAATTGGTGGCAACCTTCTTT
1 AAAGCCCACACAAGTTGGTGGCAACCTT-TTT
* * *
133207 AAAGCCCACATAAATTGGTGGCAACCCTTTCT
1 AAAGCCCACACAAGTTGGTGGCAA-CCTTTTT
*
133239 AAACCCCACACAAGTTGGTGGCAACCTTTTCT
1 AAAGCCCACACAAGTTGGTGGCAACCTTTT-T
* *
133271 AAAG-CCACAGAAATTGGTGGCAACCTTCTTT
1 AAAGCCCACACAAGTTGGTGGCAACCTT-TTT
* **
133302 AAAGCCCATACAAGTTGGTGGCAATTTTTTTT
1 AAAGCCCACACAAGTTGGTGGCAA-CCTTTTT
* * **
133334 ACAGCCCACACAAGTCGGTGGCAACCCTTTCA
1 AAAGCCCACACAAGTTGGTGGCAA-CCTTTTT
133366 AAAGCCCACACAAGTTGGTGGCA
1 AAAGCCCACACAAGTTGGTGGCA
133389 TTTCCTTCTA
Statistics
Matches: 205, Mismatches: 35, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
31 35 0.17
32 164 0.80
33 6 0.03
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (31 bp):
AAAGCCCACACAAGTTGGTGGCAACCTTTTT
Found at i:133340 original size:127 final size:128
Alignment explanation
Indices: 133106--133388 Score: 381
Period size: 127 Copynumber: 2.2 Consensus size: 128
133096 CATGAATCCC
* * *
133106 TTCTCAAAGCCCACACAAGTTGGTGGCAACCCTTTTTAATGCCCACACAAGTTGATGGTAACCTT
1 TTCT-AAAGCCCACACAAGTTGGTGGCAACCCTTTTTAAAGCCCACACAAATTGATGGCAACCTT
* *
133171 CTTTAAAACCCAGACAAATTGGTGGCAACCTTCTTTAAAGCCCACATAAATTGGTGGCAACCCT
65 CTTTAAAACCCAGACAAATTGGTGGCAACCTTCTTTAAAGCCCACACAAATCGGTGGCAACCCT
* * *
133235 TTCTAAACCCCACACAAGTTGGTGGCAA-CCTTTTCTAAAG-CCACAGAAATTGGTGGCAACCTT
1 TTCTAAAGCCCACACAAGTTGGTGGCAACCCTTTT-TAAAGCCCACACAAATTGATGGCAACCTT
* * * ** * * *
133298 CTTTAAAGCCCATACAAGTTGGTGGCAATTTTTTTTACAGCCCACACAAGTCGGTGGCAACCCT
65 CTTTAAAACCCAGACAAATTGGTGGCAACCTTCTTTAAAGCCCACACAAATCGGTGGCAACCCT
*
133362 TTCAAAAGCCCACACAAGTTGGTGGCA
1 TTCTAAAGCCCACACAAGTTGGTGGCA
133389 TTTCCTTCTA
Statistics
Matches: 135, Mismatches: 18, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
127 104 0.77
128 27 0.20
129 4 0.03
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (128 bp):
TTCTAAAGCCCACACAAGTTGGTGGCAACCCTTTTTAAAGCCCACACAAATTGATGGCAACCTTC
TTTAAAACCCAGACAAATTGGTGGCAACCTTCTTTAAAGCCCACACAAATCGGTGGCAACCCT
Found at i:133464 original size:49 final size:49
Alignment explanation
Indices: 133397--133732 Score: 339
Period size: 49 Copynumber: 6.7 Consensus size: 49
133387 CATTTCCTTC
* *
133397 TAAGCCCAATGTCACTGGCCTTTAATCAGCACATTGGCACTTTCATTTT
1 TAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACTTTCATTTT
* * **
133446 TAAATCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCATCATTTT
1 TAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACTTTCATTTT
*
133495 TAAGTCCAATGTCACTGGCCTTGAATCGGCACATTGGCACTTTCATTTT
1 TAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACTTTCATTTT
** ** *
133544 TAAGTCCAATGTTTGCTGGCCTTGAATCAGCACATTGGCACCATCATCTT
1 TAAGTCCAATG-TCACTGGCCTTGAATCAGCACATTGGCACTTTCATTTT
* * * * * * **
133594 TATGTCCGATATTACTGGCCTTGAATCAACATATTGGCATCTTTAACATTCC
1 TAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCA-CTTT--CATTTT
* * ** * *
133646 TAAGCCCAATTTTGCTGGCCTTGAATCAACACATTGGCATTCTTTTCATCTT
1 TAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCA--C-TTTCATTTT
* * * *
133698 CAAGTCTAATGTCACTAGCCGTGAATCAGCACATT
1 TAAGTCCAATGTCACTGGCCTTGAATCAGCACATT
133733 AACATTTTTT
Statistics
Matches: 235, Mismatches: 46, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
49 123 0.52
50 42 0.18
52 65 0.28
53 2 0.01
54 3 0.01
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (49 bp):
TAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACTTTCATTTT
Found at i:133614 original size:99 final size:99
Alignment explanation
Indices: 133397--133732 Score: 388
Period size: 99 Copynumber: 3.4 Consensus size: 99
133387 CATTTCCTTC
* * * * *
133397 TAAGCCCAATGTCACTGGCCTTTAATCAGCACATTGGCACTTTCATTTTTAAATCCAATG-TCGC
1 TAAGTCCAATATCACTGGCCTTGAATCAGCACATTGGCACTTTCATTTTTAAGTCCAATGTTTGC
*
133461 TGGCCTTGAATCAGCACATTGGCACCATCATTTT
66 TGGCCTTGAATCAGCACATTGGCACCATCATCTT
* *
133495 TAAGTCCAATGTCACTGGCCTTGAATCGGCACATTGGCACTTTCATTTTTAAGTCCAATGTTTGC
1 TAAGTCCAATATCACTGGCCTTGAATCAGCACATTGGCACTTTCATTTTTAAGTCCAATGTTTGC
133560 TGGCCTTGAATCAGCACATTGGCACCATCATCTT
66 TGGCCTTGAATCAGCACATTGGCACCATCATCTT
* * * * * ** *
133594 TATGTCCGATATTACTGGCCTTGAATCAACATATTGGCATCTTTAACATTCCTAAGCCCAAT-TT
1 TAAGTCCAATATCACTGGCCTTGAATCAGCACATTGGCA-CTTT--CATTTTTAAGTCCAATGTT
* **
133658 TGCTGGCCTTGAATCAACACATTGGCATTCTTTTCATCTT
63 TGCTGGCCTTGAATCAGCACATTGGCA--C-CATCATCTT
* * * * *
133698 CAAGTCTAATGTCACTAGCCGTGAATCAGCACATT
1 TAAGTCCAATATCACTGGCCTTGAATCAGCACATT
133733 AACATTTTTT
Statistics
Matches: 202, Mismatches: 29, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
98 56 0.28
99 68 0.34
100 4 0.02
101 28 0.14
102 13 0.06
103 1 0.00
104 32 0.16
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (99 bp):
TAAGTCCAATATCACTGGCCTTGAATCAGCACATTGGCACTTTCATTTTTAAGTCCAATGTTTGC
TGGCCTTGAATCAGCACATTGGCACCATCATCTT
Found at i:134553 original size:19 final size:19
Alignment explanation
Indices: 134529--134579 Score: 102
Period size: 19 Copynumber: 2.7 Consensus size: 19
134519 ATCGATACAA
134529 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTTT
134548 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTTT
134567 TGTATCGATACAT
1 TGTATCGATACAT
134580 GATTCAATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (19 bp):
TGTATCGATACATAAGTTT
Found at i:134592 original size:20 final size:20
Alignment explanation
Indices: 134567--134660 Score: 118
Period size: 20 Copynumber: 4.7 Consensus size: 20
134557 ACATAAGTTT
*
134567 TGTATCGATACATGATTCAA
1 TGTATCGATACATTATTCAA
*
134587 TGTATCAATACATTA-TCTAGA
1 TGTATCGATACATTATTC-A-A
* *
134608 TGTACCGATACTTTATTCAA
1 TGTATCGATACATTATTCAA
134628 TGTATCGATACATTATTCAA
1 TGTATCGATACATTATTCAA
*
134648 TGTATCAATACAT
1 TGTATCGATACAT
134661 GTAGGCAAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
19 2 0.03
20 45 0.71
21 14 0.22
22 2 0.03
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTATTCAA
Found at i:140033 original size:442 final size:442
Alignment explanation
Indices: 139199--140068 Score: 1165
Period size: 442 Copynumber: 2.0 Consensus size: 442
139189 ATGTCAAATT
* * * ** * * **
139199 GAAACCAATGTAACCAATTTCGAGTCAAAATATTATTAGTAAGGTATTGATTTTGGGCATCGTGA
1 GAAACCAATGTAACCAATATAGAGTCAAAATATTACTAGTAAGGTACCGATTTCGAGCATCGCAA
*
139264 GAAGGTTCGTACCTCTTTGCGCTTAATCAACTCCTGAACCCCACCGACGAATCTCTAAATTACGT
66 GAAGGTTCGTACCTCTTTGCGCGTAATCAACTCCTGAACCCCACCGACGAATCTCTAAATTACGT
* **
139329 AGACCACGAGATCAATGTTTCAAGTTTCATAACTCAAAACATGAGTTTCAATAGGTATCCGATTG
131 AGACCACGAGATCAATGTTTCAAGTTTCATAACTCAAAACATGAGTTTCAATAAGTATCCGATCA
* * *
139394 TGCCTAGTCCAAAATAATCGATGGGGACTCCAAAAGTTTGGTCATTTCGTGGTGACCGTCAAAGA
196 TGCCTAGACCAAAATAATCGATAGGGACTCCAAAAGTTTGGTCACTTCGTGGTGACCGTCAAAGA
* * * * *
139459 TCTATTATATGGGTAATTCATCTATCGATCTTCCCCTCTTTGATCAACATATGTCTCATCACACC
261 TCGATTAGATCGGCAATTCATCTATCGATCTTCCCCCCTTTGATCAACATATGTCTCATCACACC
* * * * *
139524 ATAAAAATCTCCAAGCACGAGGGATATTATGTCAGGCGTGTCTCATGTGCCCTACCGCTGAGGTC
326 ATAAAAATCTCCAAGCACAAGGGATATTAAGTCAGGCATGTCTCATATGCCCTACCACTGAGGTC
** * * *
139589 GAGTGCACGTTGCGACAGCTTGGCGACTGCACTAGGGATTGAACCTAGAATC
391 GAGCACACGTTACAACAGCTTGGCGACTCCACTAGGGATTGAACCTAGAATC
* *
139641 GAAACCAATGTAACCAATATAGAGTCAAAATATTGCTAGTAAGGTACCGATTTCGAGCGTCGCAA
1 GAAACCAATGTAACCAATATAGAGTCAAAATATTACTAGTAAGGTACCGATTTCGAGCATCGCAA
* * * * *
139706 GGAGGTTCGTACCTCTTTGTGCGTAA-CTAACTCCTGAACCCTATCGACGAATCTCTAAATTATG
66 GAAGGTTCGTACCTCTTTGCGCGTAATC-AACTCCTGAACCCCACCGACGAATCTCTAAATTACG
* * * *
139770 TAGACCACGGGATCAATGTTTCGAGTTTCGTAACTCAAAACATGGGTTTCAATAAGTATCCGATC
130 TAGACCACGAGATCAATGTTTCAAGTTTCATAACTCAAAACATGAGTTTCAATAAGTATCCGATC
* * * * **
139835 ATGTCTA-ACCTGAAATGATC-AGTAGTGACTCCAAAAGTTTGGTCACTTCGTGGTGACCGTTGA
195 ATGCCTAGACC-AAAATAATCGA-TAGGGACTCCAAAAGTTTGGTCACTTCGTGGTGACCGTCAA
* *
139898 AGATCGATTAGATCGGCGATTTATCTATCGATCTTCCCCCCTTTGATCAACATATGTCTCATCAC
258 AGATCGATTAGATCGGCAATTCATCTATCGATCTTCCCCCCTTTGATCAACATATGTCTCATCAC
* *
139963 ACCATAAAAATC-CCTAAGCACAAGTGATATTAAGTC-GAGCATGTCTCATATGCCCTATCACTG
323 ACCATAAAAATCTCC-AAGCACAAGGGATATTAAGTCAG-GCATGTCTCATATGCCCTACCACTG
* * *
140026 GGGTCGAGCACATGTTACAACAGCTTGGTGACTCCACTAGGGA
386 AGGTCGAGCACACGTTACAACAGCTTGGCGACTCCACTAGGGA
140069 CTGGTAAGTG
Statistics
Matches: 368, Mismatches: 55, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
441 7 0.02
442 361 0.98
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (442 bp):
GAAACCAATGTAACCAATATAGAGTCAAAATATTACTAGTAAGGTACCGATTTCGAGCATCGCAA
GAAGGTTCGTACCTCTTTGCGCGTAATCAACTCCTGAACCCCACCGACGAATCTCTAAATTACGT
AGACCACGAGATCAATGTTTCAAGTTTCATAACTCAAAACATGAGTTTCAATAAGTATCCGATCA
TGCCTAGACCAAAATAATCGATAGGGACTCCAAAAGTTTGGTCACTTCGTGGTGACCGTCAAAGA
TCGATTAGATCGGCAATTCATCTATCGATCTTCCCCCCTTTGATCAACATATGTCTCATCACACC
ATAAAAATCTCCAAGCACAAGGGATATTAAGTCAGGCATGTCTCATATGCCCTACCACTGAGGTC
GAGCACACGTTACAACAGCTTGGCGACTCCACTAGGGATTGAACCTAGAATC
Found at i:146907 original size:13 final size:13
Alignment explanation
Indices: 146889--146913 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
146879 CAAAGATCAG
146889 TGTATCGATACAA
1 TGTATCGATACAA
146902 TGTATCGATACA
1 TGTATCGATACA
146914 TTTAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:146991 original size:33 final size:33
Alignment explanation
Indices: 146954--147020 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
146944 AGTAGCTTGA
146954 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
146987 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
147020 A
1 A
147021 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:146994 original size:13 final size:13
Alignment explanation
Indices: 146976--147000 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
146966 CAAAAAAATA
146976 TGTATCGATACAT
1 TGTATCGATACAT
146989 TGTATCGATACA
1 TGTATCGATACA
147001 ACACTTTATG
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):
TGTATCGATACAT
Found at i:153324 original size:20 final size:19
Alignment explanation
Indices: 153301--153371 Score: 54
Period size: 20 Copynumber: 3.6 Consensus size: 19
153291 GTGTCTTTCG
153301 CAAAAAAAAAGAAGAAAAAA
1 CAAAAAAAAAGAA-AAAAAA
* **
153321 CAAAAAACAACCAAAAAAA
1 CAAAAAAAAAGAAAAAAAA
*
153340 TAAAAAAACAA-AAACAAAAA
1 CAAAAAAA-AAGAAA-AAAAA
*
153360 AAATAAAAAAAG
1 CAA-AAAAAAAG
153372 GGTCTGGATA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
19 14 0.35
20 21 0.52
21 5 0.12
ACGTcount: A:0.83, C:0.10, G:0.04, T:0.03
Consensus pattern (19 bp):
CAAAAAAAAAGAAAAAAAA
Found at i:153363 original size:23 final size:26
Alignment explanation
Indices: 153315--153370 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 26
153305 AAAAAAGAAG
153315 AAAAAACAAAAAACAACCAAAAAAATA
1 AAAAAACAAAAAACAA-CAAAAAAATA
153342 AAAAAAC-AAAAAC-A-AAAAAAATA
1 AAAAAACAAAAAACAACAAAAAAATA
153365 AAAAAA
1 AAAAAA
153371 GGGTCTGGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
23 15 0.52
25 1 0.03
26 6 0.21
27 7 0.24
ACGTcount: A:0.86, C:0.11, G:0.00, T:0.04
Consensus pattern (26 bp):
AAAAAACAAAAAACAACAAAAAAATA
Found at i:154878 original size:27 final size:27
Alignment explanation
Indices: 154848--154949 Score: 71
Period size: 27 Copynumber: 3.5 Consensus size: 27
154838 CTTTCCAAGC
*
154848 CCACACCTCCGTGGCACCCTTTAAAGT
1 CCACAACTCCGTGGCACCCTTTAAAGT
* * *
154875 CCACAACTCCATAGCACCTTTTTCTTTCCAAAAGC
1 CCACAACTCCGTGGCACC-----CTTT---AAAGT
*
154910 CCAC-ACTTCCGTGGCACCCTTTTAAGT
1 CCACAAC-TCCGTGGCACCCTTTAAAGT
154937 CCACAACTCCGTG
1 CCACAACTCCGTG
154950 ATACCTTTTT
Statistics
Matches: 57, Mismatches: 8, Indels: 20
0.67 0.09 0.24
Matches are distributed among these distances:
27 28 0.49
28 2 0.04
30 4 0.07
32 4 0.07
34 2 0.04
35 17 0.30
ACGTcount: A:0.24, C:0.39, G:0.12, T:0.25
Consensus pattern (27 bp):
CCACAACTCCGTGGCACCCTTTAAAGT
Found at i:154921 original size:62 final size:62
Alignment explanation
Indices: 154834--155083 Score: 319
Period size: 62 Copynumber: 4.1 Consensus size: 62
154824 TAGTGGCATC
* *
154834 TTTTCTTTCC--AAGCCCACACCTCCGTGGCACCCTTTAAAGTCCACAACTCCATAGCACCT
1 TTTTCTTTCCAAAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCATAGCACCT
* *
154894 TTTTCTTTCCAAAAGCCCAC-ACTTCCGTGGCACCCTTTTAAGTCCACAACTCCGT-GATACCT
1 TTTTCTTTCCAAAAGCCCACAAC-TCCGTGGCACCCTTTTAAGTCCACAACTCCATAG-CACCT
* * *
154956 TTTTCTTTCCAAAAGCCCACAACTCCGCGGCACTCTTTTAAGTCCATAACTCCATAGCACCT
1 TTTTCTTTCCAAAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCATAGCACCT
* * * * * * * *
155018 TTTTTTTTTCAAAAGCCCACAACTCTGTGGCGCCTTTTTAAGTCCACGACTCCATGGCACCC
1 TTTTCTTTCCAAAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCATAGCACCT
155080 TTTT
1 TTTT
155084 AAGTCCACGA
Statistics
Matches: 164, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
60 10 0.06
61 2 0.01
62 149 0.91
63 3 0.02
ACGTcount: A:0.23, C:0.35, G:0.11, T:0.31
Consensus pattern (62 bp):
TTTTCTTTCCAAAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCATAGCACCT
Found at i:155069 original size:27 final size:27
Alignment explanation
Indices: 155053--155150 Score: 160
Period size: 27 Copynumber: 3.6 Consensus size: 27
155043 TGTGGCGCCT
155053 TTTTAAGTCCACGACTCCATGGCACCC
1 TTTTAAGTCCACGACTCCATGGCACCC
155080 TTTTAAGTCCACGACTCCATGGCACCC
1 TTTTAAGTCCACGACTCCATGGCACCC
* * *
155107 TTTTAAGTCCATGACTTCATGGCAACC
1 TTTTAAGTCCACGACTCCATGGCACCC
*
155134 TTTTAAGTCCACAACTC
1 TTTTAAGTCCACGACTC
155151 GGTGGCAACA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.24, C:0.33, G:0.13, T:0.30
Consensus pattern (27 bp):
TTTTAAGTCCACGACTCCATGGCACCC
Found at i:155157 original size:54 final size:54
Alignment explanation
Indices: 155034--155157 Score: 167
Period size: 54 Copynumber: 2.3 Consensus size: 54
155024 TTTCAAAAGC
* * * *
155034 CCACAACTCTGTGGCGCCTTTTTAAGTCCACGACTCCATGGCACCCTTTTAAGT
1 CCACAACTCCGTGGCACCCTTTTAAGTCCACGACTCCATGGCAACCTTTTAAGT
* * * *
155088 CCACGACTCCATGGCACCCTTTTAAGTCCATGACTTCATGGCAACCTTTTAAGT
1 CCACAACTCCGTGGCACCCTTTTAAGTCCACGACTCCATGGCAACCTTTTAAGT
*
155142 CCACAACTCGGTGGCA
1 CCACAACTCCGTGGCA
155158 ACATTCTTAA
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.23, C:0.33, G:0.17, T:0.27
Consensus pattern (54 bp):
CCACAACTCCGTGGCACCCTTTTAAGTCCACGACTCCATGGCAACCTTTTAAGT
Found at i:155331 original size:52 final size:53
Alignment explanation
Indices: 155190--155332 Score: 173
Period size: 54 Copynumber: 2.7 Consensus size: 53
155180 GTCGGTGACA
* * * *
155190 TCTA-CTTCTAAGCCCAATGTCGTTGGCCTTGAATTAACACATTGGCACCTTTT
1 TCTATCTT-TAAGCCCAATGTCGTTGGCCTTGAATCAACACATTAGCACCCTTG
* * * *
155243 TCTTTCTTCAAGTCCAAATGTCGTTGGCCTTGAATCAGCACATTAGCACCCTTG
1 TCTATCTTTAAG-CCCAATGTCGTTGGCCTTGAATCAACACATTAGCACCCTTG
*
155297 T-TATCTTTAAGCCCAATATCGTTGGCCTTGAATCAA
1 TCTATCTTTAAGCCCAATGTCGTTGGCCTTGAATCAA
155333 TATATTGGCA
Statistics
Matches: 75, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
52 22 0.29
53 14 0.19
54 39 0.52
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (53 bp):
TCTATCTTTAAGCCCAATGTCGTTGGCCTTGAATCAACACATTAGCACCCTTG
Found at i:155419 original size:52 final size:51
Alignment explanation
Indices: 155198--155420 Score: 180
Period size: 52 Copynumber: 4.3 Consensus size: 51
155188 CATCTACTTC
* *
155198 TAAGCCCAATGTCGTTGGCCTTGAATTAACACATTGGCACCTTTTTCT-TTCTT
1 TAAGCCCAATGTCGTTGGCCTTGAATCAACACATTGGCA--TTCTTCTATT-TT
* * * * ** * *
155251 CAAGTCCAAATGTCGTTGGCCTTGAATCAGCACATTAGCACCCTTGTTATCTT
1 TAAG-CCCAATGTCGTTGGCCTTGAATCAACACATTGGCATTCTT-CTATTTT
* * * **
155304 TAAGCCCAATATCGTTGGCCTTGAATCAATATATTGGCA-TCTTCAATATTCC
1 TAAGCCCAATGTCGTTGGCCTTGAATCAACACATTGGCATTCTTC--TATTTT
* * * *
155356 TAAGCCTAATGTCGCTGGCATTGAATCAACACATTGGCATTTTTCTCATTTT
1 TAAGCCCAATGTCGTTGGCCTTGAATCAACACATTGGCATTCTTCT-ATTTT
*
155408 TAAGTCCAATGTC
1 TAAGCCCAATGTC
155421 ACTCGTCTTT
Statistics
Matches: 130, Mismatches: 33, Indels: 15
0.73 0.19 0.08
Matches are distributed among these distances:
51 4 0.03
52 81 0.62
53 13 0.10
54 32 0.25
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (51 bp):
TAAGCCCAATGTCGTTGGCCTTGAATCAACACATTGGCATTCTTCTATTTT
Found at i:156272 original size:33 final size:33
Alignment explanation
Indices: 156230--156295 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
156220 GCCAAAGAAA
*
156230 TGTATCGATACATTAATAAATGTATTGATACAT
1 TGTATCGATACATTAATAAATGTATCGATACAT
* * *
156263 TGTATCGATACATTTATCATTGTATCGATACAT
1 TGTATCGATACATTAATAAATGTATCGATACAT
156296 GTAGGCAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (33 bp):
TGTATCGATACATTAATAAATGTATCGATACAT
Found at i:166940 original size:16 final size:15
Alignment explanation
Indices: 166927--166960 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 15
166917 TATTAATTTA
166927 TTTTATATTTAATTACT
1 TTTTA-ATTTAATTA-T
166944 TTTTAATTTAATTAT
1 TTTTAATTTAATTAT
166959 TT
1 TT
166961 CTTATTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.18
16 9 0.53
17 5 0.29
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTAATTTAATTAT
Found at i:167092 original size:26 final size:26
Alignment explanation
Indices: 167043--167095 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
167033 AAAGTTGATA
167043 AAATTTCATAGAAAAATATTATATAT
1 AAATTTCATAGAAAAATATTATATAT
* *
167069 AAATTTCTTA-AAAAATGTTAATATAT
1 AAATTTCATAGAAAAATATT-ATATAT
167095 A
1 A
167096 TTAGAACAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (26 bp):
AAATTTCATAGAAAAATATTATATAT
Found at i:169110 original size:13 final size:14
Alignment explanation
Indices: 169089--169121 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
169079 TTAATAAATG
169089 TTCTT-AATTTATT
1 TTCTTCAATTTATT
169102 TT-TTCAATTTATT
1 TTCTTCAATTTATT
169115 TTCTTCA
1 TTCTTCA
169122 TTTTTTGTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 12 0.67
14 4 0.22
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.67
Consensus pattern (14 bp):
TTCTTCAATTTATT
Found at i:173092 original size:159 final size:159
Alignment explanation
Indices: 172803--173144 Score: 492
Period size: 159 Copynumber: 2.2 Consensus size: 159
172793 TGGAGATGAC
* * * *
172803 AACGGGGCTAGAGTATCCCCTGATTATGGAAAATCGGTGTTCTAGAAATAAAATCGGGGTTGGAG
1 AACGGGGTTGGAGTATTCCCTGATTATGGAAAATCAGTGTTCTAGAAATAAAATCGGGGTTGGAG
* * * *
172868 TATCCCATCGGAAATAACAGGGTTAGAGCATCCCTAATTATAGAACATTAGCGTTTTGAAAATAA
66 TATCCCATCGGAAATAACAGGGATAGAGCATCCCTAATTATAGAAAATCAGCATTTTGAAAATAA
172933 AATCGGGGTTGGAGTATACCCTCGAAGAT
131 AATCGGGGTTGGAGTATACCCTCGAAGAT
*
172962 AACGGGGTTGGAGTATTCCCTGATTATGGAAAATCAGTTTTCTAGAAATAAAATCGGGGTTGGAG
1 AACGGGGTTGGAGTATTCCCTGATTATGGAAAATCAGTGTTCTAGAAATAAAATCGGGGTTGGAG
* * * *
173027 TATCCCCTC-GACAATAACA-GGATAGGAGCATCCCTGATTATAGAAAATCGGTATTTTGAAAAT
66 TATCCCATCGGA-AATAACAGGGATA-GAGCATCCCTAATTATAGAAAATCAGCATTTTGAAAAT
*
173090 AAAATCGGGGTTGGAGTATCCCCTCGAAGAT
129 AAAATCGGGGTTGGAGTATACCCTCGAAGAT
* * *
173121 AACAGGTTTGGAGTA-TCCCCGATT
1 AACGGGGTTGGAGTATTCCCTGATT
173145 GTAAAAAATC
Statistics
Matches: 164, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
158 14 0.09
159 150 0.91
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (159 bp):
AACGGGGTTGGAGTATTCCCTGATTATGGAAAATCAGTGTTCTAGAAATAAAATCGGGGTTGGAG
TATCCCATCGGAAATAACAGGGATAGAGCATCCCTAATTATAGAAAATCAGCATTTTGAAAATAA
AATCGGGGTTGGAGTATACCCTCGAAGAT
Found at i:173155 original size:79 final size:78
Alignment explanation
Indices: 172813--173191 Score: 404
Period size: 79 Copynumber: 4.8 Consensus size: 78
172803 AACGGGGCTA
* * *
172813 GAGTATCCCCTGATTATGGAAAATCGGTGTTCTAGAAATAAAATCGGGGTTGGAGTATCCCATCG
1 GAGTAT-CCCTGATTATAGAAAATCGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTC-
*
172878 GAAATAACAGGGTTA
64 GAAATAACAGGGTTG
* * * ** * *
172893 GAGCATCCCTAATTATAGAACATTAGCGTTTT-GAAAATAAAATCGGGGTTGGAGTATACCCTCG
1 GAGTATCCCTGATTATAGAAAATCGGTGTTTTAG-AAATAAAATCGGGGTTGGAGTATCCCCTCG
*
172957 AAGATAACGGGGTTG
65 AA-ATAACAGGGTTG
* *
172972 GAGTATTCCCTGATTATGGAAAATCAGT-TTTCTAGAAATAAAATCGGGGTTGGAGTATCCCCTC
1 GAGTA-TCCCTGATTATAGAAAATCGGTGTTT-TAGAAATAAAATCGGGGTTGGAGTATCCCCTC
* *
173036 GACAATAACAGGATAG
64 GA-AATAACAGGGTTG
* *
173052 GAGCATCCCTGATTATAGAAAATCGGTATTTT-GAAAATAAAATCGGGGTTGGAGTATCCCCTCG
1 GAGTATCCCTGATTATAGAAAATCGGTGTTTTAG-AAATAAAATCGGGGTTGGAGTATCCCCTCG
*
173116 AAGATAACAGGTTTG
65 AA-ATAACAGGGTTG
* * * * * *** *
173131 GAGTATCCCCGATTGTAAAAAATCGATGCTTTAGAAATAAGGCCGGGGTTAGAGTATCCCC
1 GAGTATCCCTGATTATAGAAAATCGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
173192 AATTGTGAGA
Statistics
Matches: 251, Mismatches: 38, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
78 6 0.02
79 173 0.69
80 70 0.28
81 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.27
Consensus pattern (78 bp):
GAGTATCCCTGATTATAGAAAATCGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGA
AATAACAGGGTTG
Found at i:175737 original size:45 final size:42
Alignment explanation
Indices: 175607--175737 Score: 133
Period size: 42 Copynumber: 3.0 Consensus size: 42
175597 CCTACTTTTC
*
175607 GAGGAC-AAAGAAAAAAGGAAAACGAAA-TGTGTCCTGCTCTTT
1 GAGGACAAAAG-AAAGAGGAAAAC-AAAGTGTGTCCTGCTCTTT
* *
175649 GAGGATAAAAGAAAGAGGAAAACAAAGTGCGTCCTGCTCTTT
1 GAGGACAAAAGAAAGAGGAAAACAAAGTGTGTCCTGCTCTTT
* **
175691 GAGGACAAAAGGGAAA-AGGAGGGAATGAAGTGTGTCCTGCTCTTT
1 GAGGACAAAA--GAAAGAGGA--AAACAAAGTGTGTCCTGCTCTTT
175736 GA
1 GA
175738 CAAAGAAGAA
Statistics
Matches: 75, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
41 3 0.04
42 39 0.52
43 8 0.11
44 4 0.05
45 21 0.28
ACGTcount: A:0.39, C:0.13, G:0.29, T:0.19
Consensus pattern (42 bp):
GAGGACAAAAGAAAGAGGAAAACAAAGTGTGTCCTGCTCTTT
Found at i:175934 original size:61 final size:61
Alignment explanation
Indices: 175746--175934 Score: 204
Period size: 61 Copynumber: 3.1 Consensus size: 61
175736 GACAAAGAAG
* * * *
175746 AAAAAGAAAAGGCTTCCTGCTCTTTAAGGACTAAAAAGTGCCACCAACTCGTGTGTGCTTT
1 AAAAGGAAAAAGCATCCTGCTCTTTAAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT
* ** * * *
175807 GAAAA--AAGAAAGCATCATGCTCTTTAAGGACTGGAAGGTGCC-CTCAACTCGAGTGGTCTTT
1 -AAAAGGAA-AAAGCATCCTGCTCTTTAAGGACTAAAAAGTGCCAC-CAACTCGTGTGGGCTTT
* * * *
175868 AAAAGGAAAAAGCATCCTGCTCTTTGAGGACAAAAAAATGCCACCAACTTGTGTGGGCTTT
1 AAAAGGAAAAAGCATCCTGCTCTTTAAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT
175929 AAAAGG
1 AAAAGG
175935 CATCCCGCTC
Statistics
Matches: 103, Mismatches: 19, Indels: 11
0.77 0.14 0.08
Matches are distributed among these distances:
60 7 0.07
61 89 0.86
62 7 0.07
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (61 bp):
AAAAGGAAAAAGCATCCTGCTCTTTAAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT
Found at i:176110 original size:157 final size:156
Alignment explanation
Indices: 175859--176619 Score: 652
Period size: 172 Copynumber: 4.6 Consensus size: 156
175849 CTCAACTCGA
* * * *
175859 GTGGTCTTTAAAAGGAAAAAGCATCCTGCTCTTTGAGGAC-AAAAAAATGCCACCAACTTGTGTG
1 GTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTG
* * * *
175923 GGCTTTAAAAGGCATCCCGCTCTTTGAGGACTAAAGGGTGAAAGGAGAGAGCTTCCTGCTCTTTG
66 GGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGCGAAAGGAGAGAGCGTCCTGCTCTTTG
175988 AAGACTAAGAAGTGCCACCAACTTGT
131 AAGACTAAGAAGTGCCACCAACTTGT
* * * *
176014 GTGGGCTTTAAAAAGGAAAAGGCGTCTTACTCTTTGAGGACTAGAAAAGTGCCATCAACTTGTGT
1 GTGGGCTTT-AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGT
* * * * *
176079 GGGCATTAAAAAGCGTCCTACTCTTTAAGGACTAAAGGGCGAAAGGAGAGAGCGTCTTGCTCTTT
65 GGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGCGAAAGGAGAGAGCGTCCTGCTCTTT
* *
176144 GAGGACTGAGAAGTGCCACCAACTTGT
130 GAAGACTAAGAAGTGCCACCAACTTGT
* * * *
176171 GTAGGCTTTAAAAGGAGAAGGCATCCTGCTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTATG
1 GTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTG
* ** * *
176235 GGCTTTAAAAGGCGTCCTGCTTTTTGAGGACTAAAAAAATGCCACCAACTTGTGTAGGCTTTGAA
66 GGCTTTAAAAGGCGTCCTGCTCTTTGAGGACT---AAAGGGCGA--AA---G-G-A------GAG
* *
176300 AGGCGTCCTGCTCTTT-AAGGACTAAAAAATGCCACCAACTTGT
115 A-GCGTCCTGCTCTTTGAA-GACTAAGAAGTGCCACCAACTTGT
* * * *
176343 GTGGGCTTTGAAAGGAGAAA-GCATCCTGCTCTTTGAGGACT-GGAAGGTGCCACCAATTTGTGT
1 GTGGGCTTTAAAAGGA-AAAGGCATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGT
* * ** *
176406 GGTCTTTAAAGGGAGAAAGCATCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGC
65 GGGCTTTAAA---AG---GCGTCCTGCTCTTTGAGGACT--AAAGGGCGA--AA--------GG-
* * * *
176471 TTTGAAAGGCGTCCTGCTCTTTGAGGACTGAA-AAATGCCACCAACTTGT
111 --AGAGA-GCGTCCTGCTCTTTGAAGACT-AAGAAGTGCCACCAACTTGT
* * *
176520 GTGGGCTTCAAAAGCAAAAGGCATCCTGTTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTG
1 GTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTG
* * *
176585 GGCTTTAAAAGGCATCCGGCTCTTTAAGGACTAAA
66 GGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAA
176620 ACATACCACC
Statistics
Matches: 503, Mismatches: 65, Indels: 61
0.80 0.10 0.10
Matches are distributed among these distances:
155 55 0.11
156 55 0.11
157 109 0.22
158 6 0.01
160 2 0.00
163 1 0.00
164 1 0.00
165 1 0.00
170 3 0.01
171 4 0.01
172 116 0.23
173 2 0.00
175 4 0.01
176 3 0.01
177 87 0.17
178 50 0.10
181 1 0.00
182 2 0.00
183 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (156 bp):
GTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTG
GGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGCGAAAGGAGAGAGCGTCCTGCTCTTTG
AAGACTAAGAAGTGCCACCAACTTGT
Found at i:176219 original size:61 final size:56
Alignment explanation
Indices: 176130--177028 Score: 764
Period size: 61 Copynumber: 15.4 Consensus size: 56
176120 AAAGGAGAGA
* * *
176130 GCGTCTTGCTCTTTGAGGACTGAGAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGAGAAG
1 GCGTCCTGCTCTTTGAGGACT-AAAAGTGCCACCAACTTGTGTGGGCTTT--AA-GA-AAG
* * *
176191 GCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTATGGGCTTT-A-AAAG
1 GCGTCCTGCTCTTTGAGGACT-AAAAGTGCCACCAACTTGTGTGGGCTTTAAGAAAG
* * *
176246 GCGTCCTGCTTTTTGAGGACTAAAAAAATGCCACCAACTTGTGTAGGCTTT--GAAAG
1 GCGTCCTGCTCTTTGAGGACT--AAAAGTGCCACCAACTTGTGTGGGCTTTAAGAAAG
* * *
176302 GCGTCCTGCTCTTTAAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAA
1 GCGTCCTGCTCTTTGAGGACT-AAAAGTGCCACCAACTTGTGTGGGCTTT--AA-GA-AAG
* * * * * *
176363 GCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAATTTGTGTGGTCTTTAAAGGGAGAAA
1 GCGTCCTGCTCTTTGAGGACT-AAAAGTGCCACCAACTTGTGTGGGCTTT-AA--GA-AAG
* *
176424 GCATCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT--GAAAG
1 GCGTCCTGCTCTTTGAGGACTA-AAAGTGCCACCAACTTGTGTGGGCTTTAAGAAAG
* *
176479 GCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTCAAAAGCAAAAG
1 GCGTCCTGCTCTTTGAGGACT-AAAAGTGCCACCAACTTGTGTGGGCTT--TAAG--AAAG
* *
176540 GCATCCTGTTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-A-AAAG
1 GCGTCCTGCTCTTTGAGGACT--AAAAGTGCCACCAACTTGTGTGGGCTTTAAGAAAG
* * * * * *
176596 GCATCCGGCTCTTTAAGGACTAAAACATACCACCAACTTATGTGGGCTTT--GAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAA-GTGCCACCAACTTGTGTGGGCTTTAAGAAAG
* * * * *
176651 GCATCCTACTTTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--GAGAG
1 GCGTCCTGCTCTTTGAGGACT-AAAAGTGCCACCAACTTGTGTGGGCTTTAAGAAAG
* ** *
176706 GCGTCCAGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGAGCTTT-A-AAAG
1 GCGTCCTGCTCTTTGAGGACTAAAA-GTGCCACCAACTTGTGTGGGCTTTAAGAAAG
* *
176761 GCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAT
1 GCGTCCTGCTCTTTGAGGACT-AAAAGTGCCACCAACTTGTGTGGGCTTT--AAG--AAAG
* *
176822 GCGTCCTGCTCTTTGAGGACTAAATGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAGAAAG
1 GCGTCCTGCTCTTTGAGGACTAAA-AGTGCCACCAACTTGTGTGGGCTTT----A-AGAAAG
* * * *
176884 ACGTCTTGCTCTTTGAGGACTGAAAGTTGCCACCAACTTGTGTGGGCCTTAAGAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAG-TGCCACCAACTTGTGTGGG-CTTTA-A-G-AAAG
* * * ** *
176945 GCGTCCTGCTCTTTGAGAAATGGAGGGTGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAG
1 GCGTCCTGCTCTTTGAGGACT-AAAAGTGCCACCAACTTGTGTGGGCTTT----A-AGAAAG
177007 GCGTCCTGCTCTTTGAGGACTA
1 GCGTCCTGCTCTTTGAGGACTA
177029 TGTCTTACTT
Statistics
Matches: 706, Mismatches: 89, Indels: 86
0.80 0.10 0.10
Matches are distributed among these distances:
54 7 0.01
55 246 0.35
56 80 0.11
58 2 0.00
59 5 0.01
60 12 0.02
61 249 0.35
62 95 0.13
63 6 0.01
64 4 0.01
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (56 bp):
GCGTCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTTAAGAAAG
Found at i:176352 original size:55 final size:55
Alignment explanation
Indices: 176130--176998 Score: 756
Period size: 55 Copynumber: 15.0 Consensus size: 55
176120 AAAGGAGAGA
* * * *
176130 GCGTCTTGCTCTTTGAGGACTGAGAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGAGAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT-----GA-AAG
* ** * *
176191 GCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTATGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * *
176246 GCGTCCTGCTTTTTGAGGACTAAAAAAATGCCACCAACTTGTGTAGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* *
176302 GCGTCCTGCTCTTTAAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAG
1 GCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTG-AA--AG
* ** * * * *
176360 AAAGCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAATTTGTGTGGTCTTTAAAGGGAGAAA
1 ---GCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT-----GA-AAG
*
176424 GCATCCTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
*
176479 GCGTCCTGCTCTTTGAGGACTGAAAAA-TGCCACCAACTTGTGTGGGCTTCAAAAGCAAAAG
1 GCGTCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGCTT----TG--AAAG
* * *
176540 GCATCCTGTTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * * * *
176596 GCATCCGGCTCTTTAAGGACTAAAACA-TACCACCAACTTATGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAA-AGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * * * * *
176651 GCATCCTACTTTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAG
1 GCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * ** * *
176706 GCGTCCAGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGAGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* *
176761 GCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAT
1 GCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT----G--AAAG
** *
176822 GCGTCCTGCTCTTTGAGGACTAAATGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAG
1 GCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTG--AA-AG
* * *
176880 AAAGACGTCTTGCTCTTTGAGGACT-GAAAGTTGCCACCAACTTGTGTGGGCCTTAAGAGGAAAA
1 ---G-CGTCCTGCTCTTTGAGGACTAAAAAG-TGCCACCAACTTGTGTGGG-CTT----TG-AAA
176944 G
55 G
* * ** **
176945 GCGTCCTGCTCTTTGAGAAATGGAGGGTGCCACCAACTTGTGTGGGCTTTGAAA
1 GCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAA
176999 ATAAAAAGGC
Statistics
Matches: 676, Mismatches: 89, Indels: 92
0.79 0.10 0.11
Matches are distributed among these distances:
55 264 0.39
56 78 0.12
57 5 0.01
58 3 0.00
59 1 0.00
60 4 0.01
61 243 0.36
62 65 0.10
63 3 0.00
64 1 0.00
65 3 0.00
66 5 0.01
67 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:176609 original size:233 final size:227
Alignment explanation
Indices: 176127--177028 Score: 930
Period size: 233 Copynumber: 3.9 Consensus size: 227
176117 GCGAAAGGAG
* * * *
176127 AGAGCGTCTTGCTCTTTGAGGACTGAGAA-GTGCCACCAACTTGTGTAGGCTTTAAAAGGAGAAG
1 AGAGCATCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGAGAAA
* *
176191 GCATCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTATGGGCTTTAAAAGGCGTCCTGC
64 GCATCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGC
* * * * *
176255 TTTTTGAGGACTAAAAAAATGCCACCAACTTGTGTAGGCTTTG-AAAGGCGTCCTGCTCTTTAAG
128 TCTTTGAGGACT-GAAAAATGCCACCAACTTGTGTGGGCTTAGAAAAGGCGTCCTGCTCTTTGAG
176319 GACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAA
192 GACTAAAAAATGCCACCAACTTGTGTGGGCTTT-AAA
* * *
176356 GGAGAAAGCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAATTTGTGTGGTCTTTAAAGGGAG
1 --AG--AGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAA-GGAG
*
176421 AAAGCATCCTGCTCTTTGAGGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
61 AAAGCATCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
* *
176485 TGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTCAAAAGCAAAAGGCATCCTGTT
125 TGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTT----AG-AAAAGGCGTCCTGCT
*
176550 CTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAA
185 CTTTGAGGACTA-AAAAATGCCACCAACTTGTGTGGGCTTTAAA
* * * ** * * *
176594 AG-GCATCCGGCTCTTTAAGGACTAAAACATACCACCAACTTATGTGGGCTTT----GA-AAGGC
1 AGAGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAGGAGAAAGC
* * * *
176653 ATCCTACTTTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGCGTCCAGCTCT
66 ATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
* ** * *
176718 TTGAGGACT-AAAAGGTGCCACCAACTCATGTGAGCTT-TAAAAGGCGTCCTGCTCTTTGAGGAC
131 TTGAGGACTGAAAA-ATGCCACCAACTTGTGTGGGCTTAGAAAAGGCGTCCTGCTCTTTGAGGAC
176781 TAAAAAATGCCACCAACTTGTGTGGGCTTTAAA
195 TAAAAAATGCCACCAACTTGTGTGGGCTTTAAA
* * *
176814 AGAAAAATGCGTCCTGCTCTTTGAGGACT-AAATGGTGCCACCAACTCGTGTGGGCTTTGAAAAG
1 AG----A-GCATCCTGCTCTTTGAGGACTGAAA-GGTGCCACCAACTTGTGTGGGCTTT-AAAGG
* * * *
176878 AGAAAGACGTCTTGCTCTTTGAGGACTGAAAGTTGCCACCAACTTGTGTGGGCCTTAAGAGGAAA
59 AGAAAG-CATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGG-CTT----TG-AA
* * * *** *
176943 AGGCGTCCTGCTCTTTGAGAAATGGAGGGTGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGG
117 AGGCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGC-TT----A-GAAAAGG
177008 CGTCCTGCTCTTTGAGGACTA
176 CGTCCTGCTCTTTGAGGACTA
177029 TGTCTTACTT
Statistics
Matches: 561, Mismatches: 69, Indels: 67
0.80 0.10 0.10
Matches are distributed among these distances:
220 32 0.06
221 25 0.04
225 3 0.01
226 46 0.08
227 87 0.16
228 2 0.00
231 4 0.01
232 34 0.06
233 199 0.35
234 3 0.01
236 3 0.01
238 27 0.05
239 66 0.12
240 3 0.01
246 27 0.05
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (227 bp):
AGAGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAGGAGAAAGC
ATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
TTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTAGAAAAGGCGTCCTGCTCTTTGAGGACT
AAAAAATGCCACCAACTTGTGTGGGCTTTAAA
Found at i:177922 original size:159 final size:159
Alignment explanation
Indices: 177636--177988 Score: 478
Period size: 159 Copynumber: 2.2 Consensus size: 159
177626 TGGAGATGAC
* * * *
177636 AACGGGGCTGGAGTATCCCCTGATTATGAAAAATTGGTGTTCTACAAATAAAATCGGGGTTGTAG
1 AACGGGGTTAGAGTATCCCCTGATTATGAAAAATCGGTGTTCTACAAATAAAATCGGGGTTGTAA
* *** * * * *
177701 TATCCCCTTGGAAATAACAGGGTTGGAGCATCCCTAGTTATAGAAAATCGGCATTTTGAAAATAA
66 AATCCCCTCAAAAATAACAGGGTTGGAGCATCCCTAATTATAGAAAATCAGAATTTTAAAAATAA
* *
177766 AATCAGGGTTGGAGTATACC-CTCGATGAT
131 AATCAGGGTTAGAGTAT-CCTCTCGAAGAT
* * * *
177795 AATGGGGTTAGAGTATCCCCTGATTATGGAAAATCGGTGTTCTAGATATAAAATCGGGGTTAG-A
1 AACGGGGTTAGAGTATCCCCTGATTATGAAAAATCGGTGTTCTACAAATAAAATCGGGGTT-GTA
*
177859 AAATTCCCTCAAAAATAACAGGGTTGGAGCATCCCTAATTATAGAAAATCAGAATTTTAAAAATA
65 AAATCCCCTCAAAAATAACAGGGTTGGAGCATCCCTAATTATAGAAAATCAGAATTTTAAAAATA
*
177924 AAATCGGGGTTAGAGTATCCTCTCGAAGAT
130 AAATCAGGGTTAGAGTATCCTCTCGAAGAT
*
177954 AACGGGGTTGGAGTAT-CCCTGATTATGAAAAATCG
1 AACGGGGTTAGAGTATCCCCTGATTATGAAAAATCG
177989 AAGCTTTAGA
Statistics
Matches: 169, Mismatches: 23, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
158 20 0.12
159 148 0.88
160 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (159 bp):
AACGGGGTTAGAGTATCCCCTGATTATGAAAAATCGGTGTTCTACAAATAAAATCGGGGTTGTAA
AATCCCCTCAAAAATAACAGGGTTGGAGCATCCCTAATTATAGAAAATCAGAATTTTAAAAATAA
AATCAGGGTTAGAGTATCCTCTCGAAGAT
Found at i:177986 original size:79 final size:78
Alignment explanation
Indices: 177636--177988 Score: 311
Period size: 79 Copynumber: 4.4 Consensus size: 78
177626 TGGAGATGAC
* * * *
177636 AACGGGGCTGGAGTATCCCCTGATTATGAAAAATTGGTGTTCTACAAATAAAATCGGGGTT-GTA
1 AACGGGGTTGGAGTAT-CCCTGATTATGAAAAATCGGTATTCTAAAAATAAAATCGGGGTTAG-A
*
177700 GTATCCCCTTGGAA-AT
64 GTAT-CCC-TCGAAGAT
* * * * * * *
177716 AACAGGGTTGGAGCATCCCT-AGTTAT-AGAAAATCGGCATTTTGAAAATAAAATCAGGGTTGGA
1 AACGGGGTTGGAGTATCCCTGA-TTATGA-AAAATCGGTATTCTAAAAATAAAATCGGGGTTAGA
*
177779 GTATACCCTCGATGAT
64 GTAT-CCCTCGAAGAT
* * * * * * *
177795 AATGGGGTTAGAGTATCCCCTGATTATGGAAAATCGGTGTTCTAGATATAAAATCGGGGTTAGAA
1 AACGGGGTTGGAGTAT-CCCTGATTATGAAAAATCGGTATTCTAAAAATAAAATCGGGGTTAGAG
* * *
177860 AATTCCCTCAAAAAT
65 TA-TCCCTCGAAGAT
* * * * * *
177875 AACAGGGTTGGAGCATCCCTAATTAT-AGAAAATCAGAATTTTAAAAATAAAATCGGGGTTAGAG
1 AACGGGGTTGGAGTATCCCTGATTATGA-AAAATCGGTATTCTAAAAATAAAATCGGGGTTAGAG
177939 TATCCTCTCGAAGAT
65 TATCC-CTCGAAGAT
177954 AACGGGGTTGGAGTATCCCTGATTATGAAAAATCG
1 AACGGGGTTGGAGTATCCCTGATTATGAAAAATCG
177989 AAGCTTTAGA
Statistics
Matches: 211, Mismatches: 51, Indels: 23
0.74 0.18 0.08
Matches are distributed among these distances:
78 8 0.04
79 130 0.62
80 71 0.34
81 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (78 bp):
AACGGGGTTGGAGTATCCCTGATTATGAAAAATCGGTATTCTAAAAATAAAATCGGGGTTAGAGT
ATCCCTCGAAGAT
Found at i:178133 original size:130 final size:130
Alignment explanation
Indices: 177880--178116 Score: 318
Period size: 130 Copynumber: 1.8 Consensus size: 130
177870 AAAATAACAG
* *
177880 GGTTGGAGCATCCCTAATTATAGAAAATCAGAATTTTAAAAATAAAATCGGGGTTAGAGTATCCT
1 GGTTGGAGCATCCCCAATTATAGAAAATCAGAATTTTAAAAATAAAATCGGGGTTAGAGTATCCC
* * *
177945 CTCGAAGATAACGGGGTTGGAGTATCCCTGATTATGAAAAATCGAAGCTTTAGAAATAAGGCCGA
66 CTCAAAAATAACGAGGTTGGAGTATCCCTGATTATGAAAAATCGAAGCTTTAGAAATAAGGCCGA
* * ** * * *
178010 GGTTGGAGTATCCCCAATTGT-GAGAAATCA-ATATTTTGGAAATAAAGTTGGGGTTGGAGTATC
1 GGTTGGAGCATCCCCAATTATAGA-AAATCAGA-ATTTTAAAAATAAAATCGGGGTTAGAGTATC
178073 CCCTCAAAAATAACGAGGTTGGAGTATCTCC-GATTATGAAAAAT
64 CCCTCAAAAATAACGAGGTTGGAGTATC-CCTGATTATGAAAAAT
178117 TGATGTTTTG
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
129 3 0.03
130 87 0.95
131 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (130 bp):
GGTTGGAGCATCCCCAATTATAGAAAATCAGAATTTTAAAAATAAAATCGGGGTTAGAGTATCCC
CTCAAAAATAACGAGGTTGGAGTATCCCTGATTATGAAAAATCGAAGCTTTAGAAATAAGGCCGA
Found at i:180519 original size:20 final size:20
Alignment explanation
Indices: 180494--180600 Score: 97
Period size: 20 Copynumber: 5.7 Consensus size: 20
180484 AAAATGCCTG
*
180494 AATGTATCGATACATTGTA-A
1 AATGTATCGATACAATG-AGA
*
180514 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAGA
180534 AATGTATCGATACAAT----
1 AATGTATCGATACAATGAGA
* *
180550 AA---ATCGATATAATGAGC
1 AATGTATCGATACAATGAGA
180567 AATGTATCGATACAATGCA-A
1 AATGTATCGATACAATG-AGA
180587 AATGTATCGATACA
1 AATGTATCGATACA
180601 TCTAGGTAAA
Statistics
Matches: 73, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
13 10 0.14
16 2 0.03
17 2 0.03
19 1 0.01
20 57 0.78
21 1 0.01
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACAATGAGA
Found at i:180564 original size:33 final size:33
Alignment explanation
Indices: 180519--180582 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
180509 TGTAAAATGT
180519 ATCGATACAATGAGCAATGTATCGATACAATAA
1 ATCGATACAATGAGCAATGTATCGATACAATAA
*
180552 ATCGATATAATGAGCAATGTATCGATACAAT
1 ATCGATACAATGAGCAATGTATCGATACAAT
180583 GCAAAATGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.27
Consensus pattern (33 bp):
ATCGATACAATGAGCAATGTATCGATACAATAA
Found at i:180636 original size:13 final size:13
Alignment explanation
Indices: 180618--180642 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
180608 AAACCCAGAA
180618 TGTATCGATACAT
1 TGTATCGATACAT
180631 TGTATCGATACA
1 TGTATCGATACA
180643 ATGAACAATG
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):
TGTATCGATACAT
Found at i:181290 original size:40 final size:41
Alignment explanation
Indices: 181241--181340 Score: 134
Period size: 41 Copynumber: 2.4 Consensus size: 41
181231 GTCCCATTTT
181241 TTGAGGACAAAGGAAAAAAG-AATGAAATAG-GTCTTGC-TC
1 TTGAGGACAAAGGAAAAAAGAAATGAAA-AGTGTCTTGCTTC
* *
181280 ATTGAAGACAAAGGAAAAAAGAAATGGAAAGTGTCTTGCTTC
1 -TTGAGGACAAAGGAAAAAAGAAATGAAAAGTGTCTTGCTTC
181322 TTGAGGACAAAGTGAAAAA
1 TTGAGGACAAAG-GAAAAA
181341 GAGTACGTCC
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
40 21 0.40
41 24 0.45
42 8 0.15
ACGTcount: A:0.46, C:0.09, G:0.25, T:0.20
Consensus pattern (41 bp):
TTGAGGACAAAGGAAAAAAGAAATGAAAAGTGTCTTGCTTC
Done.