Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1951
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: 63504
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:503 original size:12 final size:12
Alignment explanation
Indices: 459--504 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
449 AGTAAAATTT
*
459 TAAAAAATATAA
1 TAAAAAAAATAA
*
471 TAAAAATAATAA
1 TAAAAAAAATAA
* *
483 CAAATAAAATAA
1 TAAAAAAAATAA
495 TAAAAAAAAT
1 TAAAAAAAAT
505 TCTTTTCATC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (12 bp):
TAAAAAAAATAA
Found at i:3774 original size:14 final size:14
Alignment explanation
Indices: 3755--3784 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3745 GAATAAGTAA
*
3755 AAATAAGTGAAAAT
1 AAATAAGTAAAAAT
3769 AAATAAGTAAAAAT
1 AAATAAGTAAAAAT
3783 AA
1 AA
3785 CCCAGTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.10, T:0.20
Consensus pattern (14 bp):
AAATAAGTAAAAAT
Found at i:8217 original size:52 final size:52
Alignment explanation
Indices: 8150--8250 Score: 159
Period size: 52 Copynumber: 1.9 Consensus size: 52
8140 TGAAATATGA
**
8150 AAATTTGCCTACATGTATCGATACATTGCAT-AATGTATCGATACATTTGGGC
1 AAATTTGCCTACATGTATCGATACAAAG-ATCAATGTATCGATACATTTGGGC
*
8202 AAATTTGCCTGCATGTATCGATACAAAGATCAATGTATCGATACATTTG
1 AAATTTGCCTACATGTATCGATACAAAGATCAATGTATCGATACATTTG
8251 AGTAATTTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.04
52 43 0.96
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTACATGTATCGATACAAAGATCAATGTATCGATACATTTGGGC
Found at i:8309 original size:13 final size:13
Alignment explanation
Indices: 8291--8374 Score: 51
Period size: 13 Copynumber: 5.5 Consensus size: 13
8281 AGCTTCGTAG
8291 CGATACATTGTAT
1 CGATACATTGTAT
8304 CGATACAACACTTATGTAT
1 CGAT---ACA-TT--GTAT
8323 CGATACATTGTAT
1 CGATACATTGTAT
8336 CGATACAACACTTATGTAT
1 CGAT---ACA--T-TGTAT
*
8355 CGATGCATTGTAT
1 CGATACATTGTAT
8368 CGATACA
1 CGATACA
8375 ACACTTATGT
Statistics
Matches: 57, Mismatches: 2, Indels: 24
0.69 0.02 0.29
Matches are distributed among these distances:
13 23 0.40
14 1 0.02
15 2 0.04
16 11 0.19
17 2 0.04
18 1 0.02
19 17 0.30
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:8323 original size:19 final size:19
Alignment explanation
Indices: 8299--8416 Score: 107
Period size: 19 Copynumber: 6.7 Consensus size: 19
8289 AGCGATACAT
8299 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
8318 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
8331 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
*
8350 TGTATCGAT---GCA--T-
1 TGTATCGATACAACACTTA
8363 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
*
8382 TGTATCGATACAATTACTTA
1 TGTATCGATACAA-CACTTA
8402 TTTGTATCGATACAA
1 --TGTATCGATACAA
8417 ATTGTTGAAT
Statistics
Matches: 81, Mismatches: 3, Indels: 27
0.73 0.03 0.24
Matches are distributed among these distances:
13 18 0.22
14 2 0.02
16 10 0.12
18 2 0.02
19 31 0.38
20 5 0.06
22 13 0.16
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.36
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:8332 original size:32 final size:32
Alignment explanation
Indices: 8291--8393 Score: 197
Period size: 32 Copynumber: 3.2 Consensus size: 32
8281 AGCTTCGTAG
8291 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
8323 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
*
8355 CGATGCATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
8387 CGATACA
1 CGATACA
8394 ATTACTTATT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 69 1.00
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:10309 original size:20 final size:21
Alignment explanation
Indices: 10293--10333 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
10283 TAGGTATCAG
10293 TACATT-CACTTA-TGTATCGA
1 TACATTGC-CTTATTGTATCGA
10313 TACATTGCCTTATTGTATCGA
1 TACATTGCCTTATTGTATCGA
10334 GACAAATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (21 bp):
TACATTGCCTTATTGTATCGA
Found at i:17712 original size:20 final size:21
Alignment explanation
Indices: 17687--17739 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
17677 ATTTCAGGTA
17687 TGTATCGATACATT-CACTTAT
1 TGTATCGATACATTGC-CTTAT
*
17708 T-TATCAATACATTGCCTTAT
1 TGTATCGATACATTGCCTTAT
17728 TGTATCGATACA
1 TGTATCGATACA
17740 AATTGTTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTGCCTTAT
Found at i:22281 original size:13 final size:13
Alignment explanation
Indices: 22263--22288 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22253 ACATTTATTC
22263 ATGTATCGATACA
1 ATGTATCGATACA
22276 ATGTATCGATACA
1 ATGTATCGATACA
22289 TTGGGGTAAA
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:26756 original size:19 final size:19
Alignment explanation
Indices: 26732--26794 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
26722 AAATAGTAAC
26732 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
26751 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
26764 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
26783 TGTATCGATACA
1 TGTATCGATACA
26795 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:26769 original size:13 final size:13
Alignment explanation
Indices: 26751--26808 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
26741 ACATAAGTGT
26751 TGTATCGATACAA
1 TGTATCGATACAA
26764 TGTATCGATACATAA
1 TGTATCGATAC--AA
26779 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
*
26796 TGTATCGCTACAA
1 TGTATCGATACAA
26809 AGCTACTGCC
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:26773 original size:32 final size:32
Alignment explanation
Indices: 26732--26807 Score: 143
Period size: 32 Copynumber: 2.4 Consensus size: 32
26722 AAATAGTAAC
26732 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
26764 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
26796 TGTATCGCTACA
1 TGTATCGATACA
26808 AAGCTACTGC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:32608 original size:96 final size:96
Alignment explanation
Indices: 32444--32629 Score: 309
Period size: 96 Copynumber: 1.9 Consensus size: 96
32434 CTTACAAAAG
* * *
32444 TATTCTTGAATGTTAAATCTTTAGCATTTGTCCCATCGGAATGTTTCAATGACAAGTTGACAAAT
1 TATTCTTGAATGTTAAATCTTTAGCACTTGTCCCATCAGAATGTTTCAATGACAAATTGACAAAT
* *
32509 ATTGCATATGTAGATTTTCTAAAAAATCTAA
66 ATTGCATATGCAAATTTTCTAAAAAATCTAA
*
32540 TATTCTTGAATGTTAAATCTTTAGCACTTGTCTCATCAGAATGTTTCAATGACAAATTGACAAAT
1 TATTCTTGAATGTTAAATCTTTAGCACTTGTCCCATCAGAATGTTTCAATGACAAATTGACAAAT
*
32605 ATTGCATATGCAAATTTTCTGAAAA
66 ATTGCATATGCAAATTTTCTAAAAA
32630 GTGTAACAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 83 1.00
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (96 bp):
TATTCTTGAATGTTAAATCTTTAGCACTTGTCCCATCAGAATGTTTCAATGACAAATTGACAAAT
ATTGCATATGCAAATTTTCTAAAAAATCTAA
Found at i:35166 original size:20 final size:20
Alignment explanation
Indices: 35126--35180 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
35116 CAGTTTTGAA
35126 AAATTCTTTTTA--TTTCATG
1 AAATT-TTTTTATTTTTCATG
*
35145 -AATTTTTTTATATTTTCTTG
1 AAATTTTTTTAT-TTTTCATG
35165 AAATTTTTTTATTTTT
1 AAATTTTTTTATTTTT
35181 GAAATATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
17 6 0.19
18 4 0.13
20 10 0.32
21 11 0.35
ACGTcount: A:0.24, C:0.05, G:0.04, T:0.67
Consensus pattern (20 bp):
AAATTTTTTTATTTTTCATG
Found at i:35346 original size:164 final size:163
Alignment explanation
Indices: 35088--35658 Score: 680
Period size: 164 Copynumber: 3.4 Consensus size: 163
35078 AAAATTCTTT
* * * * * * *
35088 AAATATCAACATTTAATTTAAATTAAATCAGTTTTGAAAAATTC-TTTTTATTTCATGAATTTTT
1 AAATATCATCATTTGATTCATAGTAAATCAGTTTTGAAAAATTCATTTAT-TTTCAT-AAGTTTT
* * * *
35152 TTATATTTTCTTGAAATTTTTTTATTTTTGAAATATAAAGTTTTCTACTTCGTAAATATTTTCAG
64 TTAT-TTTT-TTGAAATTTTTCTGTTTTTGAAATACAAAGTTTTCTACTTCATAAATATTTTC-G
* * *
35217 AGGGGATTTTTCTTAGTTTACAATATTTAAAATTTGTC
126 AGGGGATTTTTCTTGGTTTACAATTTTTAAAATTTATC
*
35255 AAATATCATCATTTGATTCATAGTAAATCCGTTTTGAAAAATTCATTTATTTTCATAAGTTTTTT
1 AAATATCATCATTTGATTCATAGTAAATCAGTTTTGAAAAATTCATTTATTTTCATAAGTTTTTT
** * * * *
35320 ATTTTTTTGAAATTCCTGTGTTTTTGAAATACAAAGTTTTCTACTCCATAAATGTTTTCGAGGAA
66 ATTTTTTTGAAATTTTTCTGTTTTTGAAATACAAAGTTTTCTACTTCATAAATATTTTCGAGG-G
35385 GATTTTTCTTGGTTTACAATTTTTAAAATTTATC
130 GATTTTTCTTGGTTTACAATTTTTAAAATTTATC
* * * * * * * * *
35419 TAATATTATAAGTTGATTCATAGTAAATCAATTTTAAAAAAATTTACTTATTTCCATAAGTTTTT
1 AAATATCATCATTTGATTCATAGTAAATCAGTTTT-GAAAAATTCATTTATTTTCATAAGTTTTT
35484 TCATTTTTTCTTTGAAATTTTTCTGTTTTTGAAATACGAAA-TTTTCTA-TTCCATAAATATTTT
65 T-A--TTTT-TTTGAAATTTTTCTGTTTTTGAAATAC-AAAGTTTTCTACTT-CATAAATATTTT
* * * *
35547 CGAGGGGATCTTTCTTGGTTTATAATTTTTAAAATTCATA
124 CGAGGGGATTTTTCTTGGTTTACAATTTTTAAAATTTATC
* *
35587 AAATATCATCATTTGATTCATAGTAAAGCAGTTTTGAAAAATTCATTTATTTTCATAAGTTTTTC
1 AAATATCATCATTTGATTCATAGTAAATCAGTTTTGAAAAATTCATTTATTTTCATAAGTTTTTT
35652 ATTTTTT
66 ATTTTTT
35659 CTTTGAAATT
Statistics
Matches: 344, Mismatches: 51, Indels: 22
0.82 0.12 0.05
Matches are distributed among these distances:
163 6 0.02
164 109 0.32
165 30 0.09
166 12 0.03
167 69 0.20
168 68 0.20
169 47 0.14
170 3 0.01
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.49
Consensus pattern (163 bp):
AAATATCATCATTTGATTCATAGTAAATCAGTTTTGAAAAATTCATTTATTTTCATAAGTTTTTT
ATTTTTTTGAAATTTTTCTGTTTTTGAAATACAAAGTTTTCTACTTCATAAATATTTTCGAGGGG
ATTTTTCTTGGTTTACAATTTTTAAAATTTATC
Found at i:35803 original size:166 final size:163
Alignment explanation
Indices: 35111--35804 Score: 631
Period size: 164 Copynumber: 4.2 Consensus size: 163
35101 TAATTTAAAT
* * * * **
35111 TAAATCAGTTTTGAAAAATTC-TTTTTATTTCATGAATTTTTTTATATTTTC-TTGAAATTTTTT
1 TAAATCAGTTTTGAAAAATTCATTTAT-TTTCAT-AAGTTTTTCATTTTTTCTTTGAAA--TTCC
* * * ** *
35174 TATTTTTGAAATA-TAAAGTTTTCTACTT-CGTAAATATTTTCAGAGGGGATTTTTCTTAGTTTA
62 TGTTTTTGAAATACGAAA-TTTTCTA-TTCCATAAATATTTTC-GAAAGGATTTTTCTTGGTTTA
* ** * * *
35237 CAATATTTAAAATTTGTCAAATATCATCATTTGATTCATAG
124 CAATTTTTAAAATTCATCTAATATTATC-GTTGATTCATAG
* *
35278 TAAATCCGTTTTGAAAAATTCATTTATTTTCATAAGTTTTT--TATTTT-TTTGAAATTCCTGTG
1 TAAATCAGTTTTGAAAAATTCATTTATTTTCATAAGTTTTTCATTTTTTCTTTGAAATTCC--TG
* *
35340 TTTTTGAAATAC-AAAGTTTTCTACTCCATAAATGTTTTCGAGGAA-GATTTTTCTTGGTTTACA
64 TTTTTGAAATACGAAA-TTTTCTATTCCATAAATATTTTCGA--AAGGATTTTTCTTGGTTTACA
* *
35403 ATTTTTAAAATTTATCTAATATTATAAGTTGATTCATAG
126 ATTTTTAAAATTCATCTAATATTAT-CGTTGATTCATAG
* * * * * *
35442 TAAATCAATTTTAAAAAAATTTACTTATTTCCATAAGTTTTTTCATTTTTTCTTTGAAATTTTTC
1 TAAATCAGTTTT-GAAAAATTCATTTATTTTCATAAG-TTTTTCATTTTTTCTTTGAAA--TTCC
** * *
35507 TGTTTTTGAAATACGAAATTTTCTATTCCATAAATATTTTCGAGGGGATCTTTCTTGGTTTATAA
62 TGTTTTTGAAATACGAAATTTTCTATTCCATAAATATTTTCGAAAGGATTTTTCTTGGTTTACAA
** * *
35572 TTTTTAAAATTCATAAAATATCATCATTTGATTCATAG
127 TTTTTAAAATTCATCTAATATTATC-GTTGATTCATAG
*
35610 TAAAGCAGTTTTGAAAAATTCATTTATTTTCATAAGTTTTTCATTTTTTCTTTGAAATTCCCT-T
1 TAAATCAGTTTTGAAAAATTCATTTATTTTCATAAGTTTTTCATTTTTTCTTTGAAATT-CCTGT
* * * *
35674 ATTTTCGAAAAATCGAATTTTTC-ATTCCATAAATATTTTTGAAAGGATTTTTCTTGATTTA-AA
65 -TTTT-GAAATA-CGAAATTTTCTATTCCATAAATATTTTCGAAAGGATTTTTCTTGGTTTACAA
* * * *
35737 ATTTTAAAATTCATCTAATATTGTCGTTAGATTCCCT-T
127 TTTTTAAAATTCATCTAATATTATCGTT-GATT-CATAG
*
35775 TAAATCAGTTTTGGAAAATTCAATTTATTT
1 TAAATCAGTTTTGAAAAATTC-ATTTATTT
35805 CATGAATTTT
Statistics
Matches: 439, Mismatches: 62, Indels: 53
0.79 0.11 0.10
Matches are distributed among these distances:
162 2 0.00
163 3 0.01
164 110 0.25
165 71 0.16
166 81 0.18
167 55 0.13
168 67 0.15
169 44 0.10
170 3 0.01
171 3 0.01
ACGTcount: A:0.31, C:0.10, G:0.09, T:0.49
Consensus pattern (163 bp):
TAAATCAGTTTTGAAAAATTCATTTATTTTCATAAGTTTTTCATTTTTTCTTTGAAATTCCTGTT
TTTGAAATACGAAATTTTCTATTCCATAAATATTTTCGAAAGGATTTTTCTTGGTTTACAATTTT
TAAAATTCATCTAATATTATCGTTGATTCATAG
Found at i:35824 original size:332 final size:330
Alignment explanation
Indices: 35109--35824 Score: 860
Period size: 332 Copynumber: 2.2 Consensus size: 330
35099 TTTAATTTAA
* * * *
35109 ATTAAATCAGTTTTGAAAAATTCTTTTTATTTCATGAATTTTTTTATATTTTCTTGAAATTTTTT
1 ATTAAATCAGTTTTGAAAAATTCTATTTATTTCATGAATTTTTTAATTTTTTCTTGAAATTTTTC
* * *
35174 TATTTTTGAAATATAAAGTTTTCTACTTCGTAAATATTTTCAGAGGGGATTTTTCTTAGTTTACA
66 TATTTTTGAAATAGAAAGTTTTCTACTTCATAAATATTTTCAGAGGGGATCTTTCTTAGTTTACA
** * * *
35239 ATATTTAAAATTTGTCAAATATCATCATTTGATTCATAGTAAATCCGTTTTGAAAAATTCATTTA
131 ATATTTAAAATTCATAAAATATCATCATTTGATTCATAGTAAAGCAGTTTTGAAAAATTCATTTA
* * *
35304 TTTTCATAAGTTTTTTATTTTTTTGAAATTCCTGTGTTTTTGAAATACAAAGTTTTCTACTCCAT
196 TTTTCATAAGTTTTTTATTTTTTTGAAATTCCTGTATTTTCGAAAAACAAAGTTTTCTACTCCAT
* * * *
35369 AAATGTTTTCGAGGAAGATTTTTCTTGGTTTACAATTTTTAAAATTTATCTAATATTATAAGTTG
261 AAATATTTTCGA-GAAGATTTTTCTTGATTTACAAATTTTAAAATTCATCTAATATTATAAGTTG
35434 ATTCAT
325 ATTCAT
* * * * *
35440 AGTAAATCAATTTTAAAAAAATT-TACTTATTTCCAT-AAGTTTTTTCATTTTTTCTTTGAAATT
1 ATTAAATCAGTTTT-GAAAAATTCTATTTATTT-CATGAA-TTTTTTAATTTTTTC-TTGAAATT
* *
35503 TTTCTGTTTTTGAAATACGAAA-TTTTCTA-TTCCATAAATATTTTC-GAGGGGATCTTTCTTGG
62 TTTCTATTTTTGAAATA-GAAAGTTTTCTACTT-CATAAATATTTTCAGAGGGGATCTTTCTTAG
* *
35565 TTTATAATTTTTAAAATTCATAAAATATCATCATTTGATTCATAGTAAAGCAGTTTTGAAAAATT
125 TTTACAATATTTAAAATTCATAAAATATCATCATTTGATTCATAGTAAAGCAGTTTTGAAAAATT
* * *
35630 CATTTATTTTCATAAGTTTTTCATTTTTTCTTTGAAATTCCCT-TATTTTCGAAAAATCGAATTT
190 CATTTATTTTCATAAGTTTTT--TATTTT-TTTGAAATT-CCTGTATTTTCGAAAAA-CAAAGTT
* *
35694 TTC-ATTCCATAAATATTTTTGA-AAGGATTTTTCTTGATTTA-AAATTTTAAAATTCATCTAAT
250 TTCTACTCCATAAATATTTTCGAGAA-GATTTTTCTTGATTTACAAATTTTAAAATTCATCTAAT
* * *
35756 ATTGT-CGTTAGATTCCCT
314 ATTATAAGTT-GATT-CAT
* * **
35774 -TTAAATCAGTTTTGGAAAATTCAATTTATTTCATGAATTTTGAAATTTTTT
1 ATTAAATCAGTTTTGAAAAATTCTATTTATTTCATGAATTTTTTAATTTTTT
35825 GTATATTTAA
Statistics
Matches: 325, Mismatches: 44, Indels: 31
0.81 0.11 0.08
Matches are distributed among these distances:
331 21 0.06
332 142 0.44
333 91 0.28
334 25 0.08
335 35 0.11
336 11 0.03
ACGTcount: A:0.31, C:0.10, G:0.09, T:0.49
Consensus pattern (330 bp):
ATTAAATCAGTTTTGAAAAATTCTATTTATTTCATGAATTTTTTAATTTTTTCTTGAAATTTTTC
TATTTTTGAAATAGAAAGTTTTCTACTTCATAAATATTTTCAGAGGGGATCTTTCTTAGTTTACA
ATATTTAAAATTCATAAAATATCATCATTTGATTCATAGTAAAGCAGTTTTGAAAAATTCATTTA
TTTTCATAAGTTTTTTATTTTTTTGAAATTCCTGTATTTTCGAAAAACAAAGTTTTCTACTCCAT
AAATATTTTCGAGAAGATTTTTCTTGATTTACAAATTTTAAAATTCATCTAATATTATAAGTTGA
TTCAT
Found at i:37192 original size:15 final size:15
Alignment explanation
Indices: 37174--37211 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
37164 GAAATTTTCG
37174 AAAATAAA-AAATAAT
1 AAAATAAATAAA-AAT
37189 AAAATAAATAAAAAT
1 AAAATAAATAAAAAT
37204 AAAA-AAAT
1 AAAATAAAT
37212 CAATACGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 4 0.18
15 15 0.68
16 3 0.14
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAATAAATAAAAAT
Found at i:37199 original size:19 final size:19
Alignment explanation
Indices: 37175--37216 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
37165 AAATTTTCGA
*
37175 AAATAAAAAATAATAAAAT
1 AAATAAAAAATAAAAAAAT
37194 AAAT-AAAAATAAAAAAAT
1 AAATAAAAAATAAAAAAAT
*
37212 CAATA
1 AAATA
37217 CGATAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (19 bp):
AAATAAAAAATAAAAAAAT
Found at i:37431 original size:142 final size:141
Alignment explanation
Indices: 37245--37505 Score: 391
Period size: 142 Copynumber: 1.8 Consensus size: 141
37235 ATTTTATCAC
* * *
37245 TAAATAAAGATTATTATCATATTTTTCTAGATTTCTAGTATTCCTATGGTTTTTCGTAGGGGTAT
1 TAAATAAAAATTATTATCATATTTTTCAAGATTTCTAATATTCCTATGGTTTTTCGTAGGGGTAT
* *
37310 -AGAAATCTTCAAAAATTTTCATATCTTTT-GGGTTTTCTATTAAGGTACGAAATGAATTTTTTA
66 AAG-AATCTTCAAAAATTTTCATATCTTTTCAGTTTTTC-ATTAAGGTACGAAATGAATTTTTTA
37373 TAAATTAACAAAT
129 TAAATTAACAAAT
*
37386 TAAATAAAAATTATTATCTTAGTTTTTCAAGATTTCTAATATTCCTATGGTTTTTCGTAGGGGTA
1 TAAATAAAAATTATTATCATA-TTTTTCAAGATTTCTAATATTCCTATGGTTTTTCGTAGGGGTA
* * * *
37451 TAAGAATCTTTAAAACTTTTCGTATCTTTTCAGTTTTTCATTAAGGTTCGAAATG
65 TAAGAATCTTCAAAAATTTTCATATCTTTTCAGTTTTTCATTAAGGTACGAAATG
37506 TGATTTTTGA
Statistics
Matches: 107, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
141 19 0.18
142 80 0.75
143 8 0.07
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.45
Consensus pattern (141 bp):
TAAATAAAAATTATTATCATATTTTTCAAGATTTCTAATATTCCTATGGTTTTTCGTAGGGGTAT
AAGAATCTTCAAAAATTTTCATATCTTTTCAGTTTTTCATTAAGGTACGAAATGAATTTTTTATA
AATTAACAAAT
Found at i:37998 original size:161 final size:162
Alignment explanation
Indices: 37729--38052 Score: 526
Period size: 161 Copynumber: 2.0 Consensus size: 162
37719 TTTATGGATC
* * *
37729 TTTGTTTCTCATAAGGTTGAAATCATCATTTCTTTCATTTTTTTAGCCCTTTAGGGATGCCAAGT
1 TTTGTTTCTCATAAGGATAAAATCATCATTTCTTTCATTTTTTGAGCCCTTTAGGGATGCCAAGT
*
37794 ACTTTTATGTCGAAGGTATCTCTTAAGGGCAATCTTATAATTTCTCTAGAATCAAGTCTTAGGC-
66 ACTTTTATGTCGAAGGTATCTCGTAAGGGCAATCTTATAATTTCTCTAGAATCAAGTCTTA-GCT
*
37858 TGTCACTCTTAAGCCAAAGGTGTACATAGAGGA
130 TGTCACTCTTAAGCCAAAGGTGCACATAGAGGA
* *
37891 TTTGTTTCTCATAAGGATAAAATTATCATTTCTTTCATTTTTTGAG-CCTTTAGTGATGCCAAGT
1 TTTGTTTCTCATAAGGATAAAATCATCATTTCTTTCATTTTTTGAGCCCTTTAGGGATGCCAAGT
* * * *
37955 AGTTTTATGTCGAAGGTATCTCGTAGGGGCATTCTTTTAATTTCTCTAGAATCAAGTCTTAGCTT
66 ACTTTTATGTCGAAGGTATCTCGTAAGGGCAATCTTATAATTTCTCTAGAATCAAGTCTTAGCTT
38020 GTCACTCTTAAGCCAAAGGTGCACATAGAGGA
131 GTCACTCTTAAGCCAAAGGTGCACATAGAGGA
38052 T
1 T
38053 AGATTCACCC
Statistics
Matches: 150, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
160 2 0.01
161 106 0.71
162 42 0.28
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (162 bp):
TTTGTTTCTCATAAGGATAAAATCATCATTTCTTTCATTTTTTGAGCCCTTTAGGGATGCCAAGT
ACTTTTATGTCGAAGGTATCTCGTAAGGGCAATCTTATAATTTCTCTAGAATCAAGTCTTAGCTT
GTCACTCTTAAGCCAAAGGTGCACATAGAGGA
Found at i:39102 original size:21 final size:21
Alignment explanation
Indices: 39076--39152 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
39066 AAATTATCCA
39076 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
39097 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
* *
39118 AATGTATCGATACA-TTCTACA
1 AATGTATCGATACATTTGTA-G
39139 AATGTATCGATACA
1 AATGTATCGATACA
39153 GGGTCCCAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:39213 original size:19 final size:19
Alignment explanation
Indices: 39189--39242 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
39179 TTTCAGCGTT
*
39189 TTGTATCGATACATAAATG
1 TTGTATCGATACATAAATA
*
39208 TTGTATCGATACATAAGTA
1 TTGTATCGATACATAAATA
39227 TTGTATCGATACATAA
1 TTGTATCGATACATAA
39243 TTAGCTACTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAATA
Found at i:39300 original size:13 final size:13
Alignment explanation
Indices: 39282--39307 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39272 CATTTTTCTG
39282 TGTATCGATACAT
1 TGTATCGATACAT
39295 TGTATCGATACAT
1 TGTATCGATACAT
39308 CTAGGAAGTT
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:39851 original size:11 final size:11
Alignment explanation
Indices: 39820--39851 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
39810 ATCCTTTAGC
*
39820 AAAAAAACAAA
1 AAAAAAACACA
39831 AAAAAAACACA
1 AAAAAAACACA
39842 AAAAAAACAC
1 AAAAAAACAC
39852 TATTCCATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAACACA
Found at i:41717 original size:51 final size:53
Alignment explanation
Indices: 41649--41779 Score: 169
Period size: 51 Copynumber: 2.5 Consensus size: 53
41639 AGTTTCTCAA
* * * * *
41649 TTCTCCACAATTGGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
*
41700 TT-TTCTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
41754 TTCTTCACAATCGGGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
41780 CCCGTTAATC
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
50 2 0.03
51 33 0.49
53 9 0.13
54 21 0.31
55 3 0.04
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:41869 original size:51 final size:51
Alignment explanation
Indices: 41790--42014 Score: 243
Period size: 52 Copynumber: 4.4 Consensus size: 51
41780 CCCGTTAATC
* * * ***
41790 ATCGGGGATACTCTAACCCCGACTTTATTTCCAAAATATTGATTTTTCATA
1 ATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCATA
* * * * *
41841 ATTGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCATA
1 ATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTT-CATA
* * * * *
41893 ATCGGGGATACTCCAACCTCGGTTTTATTTTCAAAACACCAATTTTCCTTTA
1 ATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTC-ATA
* * *
41945 ATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACA
1 ATCGGGGATACTCCAACCCCGATTTTATTTCC-AAAACACCAATTTTTCATA
*
41997 ATCGAGGATACTCCAACC
1 ATCGGGGATACTCCAACC
42015 TCGTTATTTC
Statistics
Matches: 144, Mismatches: 27, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
51 39 0.27
52 91 0.63
53 14 0.10
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (51 bp):
ATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCATA
Found at i:42033 original size:28 final size:28
Alignment explanation
Indices: 41997--42073 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
41987 ATTTTTCACA
* * *
41997 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
42025 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
42053 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
42074 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:48213 original size:16 final size:16
Alignment explanation
Indices: 48189--48221 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
48179 CATACCCTAG
*
48189 GTGGTATCATCTTGTT
1 GTGGAATCATCTTGTT
48205 GTGGAATCATCTTGTT
1 GTGGAATCATCTTGTT
48221 G
1 G
48222 CTACTGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.12, G:0.27, T:0.45
Consensus pattern (16 bp):
GTGGAATCATCTTGTT
Found at i:54111 original size:13 final size:13
Alignment explanation
Indices: 54095--54131 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
54085 TTCAAAAAAG
54095 AAAAAAAAAACAA
1 AAAAAAAAAACAA
*
54108 AAAAACAAAACAA
1 AAAAAAAAAACAA
54121 AGAAAAAAAAA
1 A-AAAAAAAAA
54132 AGAAAAATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.89, C:0.08, G:0.03, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAACAA
Found at i:55351 original size:60 final size:60
Alignment explanation
Indices: 55108--56526 Score: 1384
Period size: 55 Copynumber: 25.2 Consensus size: 60
55098 GCTTTTTAGC
* *
55108 CCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGT
1 CCTCAAAGAGCAGGACGCCTTTT-CTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGT
*
55168 CCTCAAAGAGCAGGAC-AC----CTTTTAAAGCCCACACAAGTTGGTGGCAC-TTCCTAGT
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCC-AGT
* * *
55223 CCCCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGT
1 CCTCAAAGAGCAGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGT
*
55284 CCTCAAAGAGC-GAGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCCA-T
1 CCTCAAAGAGCAG-GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTCCAGT
* *
55344 CCCCAAAGAGCAGGAC-CC----CTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGT
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGT
* * *
55399 CCTCAAAGAGTAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGT
1 CCTCAAAGAGCAGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGT
* * * *
55460 CCTCAAAGAGCGGGACGCCTTTTTTTTTAAAGCCCATACAAGTTGGTGGCACCTT-CAGT
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGT
* * * *
55519 CCTCAAAGAGCGGGACG-CTTTTTTTTTAAAGCCCACCCAAGTTGGTGGCACCTT-CAGT
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGT
* *
55577 CCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACA-AAGTTGGTGGCACCTTT-CAGT
1 CCTCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCA-CTTTCCAGT
* ** *
55637 CCCCAAAGAGCAGGAC-CC----CTTTCGAAGCCCACACAAGTTGGTGGCATTTTCCAGT
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGT
*
55692 CCTCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGG-------CA-T
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGT
*
55739 CCTCAAAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGT
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGT
* * *
55794 CCCCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCATTTTCCAGT
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGT
* *
55849 CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGT
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGT
* *
55909 CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGT
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGT
* * * *
55968 CCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTT-CAGT
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGT
* * *
56027 CCTCAAAAAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGT
1 CCTCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCA-CTTTCCAGT
* ** *
56088 CCCCAAAGAGCAGGAC-CC----CTTTCGAAGCCCACACAAGTTGGTGGCATTTTCCAGT
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGT
*
56143 CCTCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGG-------CA-T
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGT
* *
56190 CCTCAAAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCACCTTT-TAGT
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGT
* * *
56245 CCCCAAAGAGCAGGACACC-TTTC----AAAGCCCACATAAGTTGGTGG-------CA-T
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGT
*
56292 CCTCAAAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGT
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGT
* * * *
56347 CCCCAAAGAGCAGGAC-ACATTTC----AAAGCCCACACAAGTTGGTGGCATTTTCCAGT
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGT
*
56402 CCTCAAAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGT
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGT
* * **
56457 CCTCAAAAAGCAGGACGCC-TTTC----AAAGCCCACACGAGTTGGTGGCACTTTTTAGT
1 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGT
56512 CCTCAAAGAGCAGGA
1 CCTCAAAGAGCAGGA
56527 TACACTTTAT
Statistics
Matches: 1194, Mismatches: 79, Indels: 177
0.82 0.05 0.12
Matches are distributed among these distances:
45 6 0.01
47 121 0.10
48 5 0.00
53 4 0.00
54 66 0.06
55 419 0.35
56 19 0.02
57 8 0.01
58 54 0.05
59 133 0.11
60 225 0.19
61 130 0.11
62 4 0.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (60 bp):
CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGT
Found at i:55794 original size:102 final size:104
Alignment explanation
Indices: 55131--56500 Score: 1120
Period size: 102 Copynumber: 12.3 Consensus size: 104
55121 GATGCCTTTT
* *
55131 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGC
1 CCTTTCAAAGCCCACACAAGTTGGTGG-----TCAGTCCTCAAAGAGCAGGACACCTCTTAAAGC
* * *
55196 CCACACAAGTTGGTGGCA-CTTCCTAGTCCCCAAAGAGCAGGACG
61 CCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACA
*
55240 CCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC-GAGACGCCT
1 CCTT-T-C----AAAGCCCACACAAGTTGGTGG-----T-CAGTCCTCAAAGAGCAG-GACACC-
* * *
55304 TTTCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCCA-TCCCCAAAGAGCAGGACC
52 --TC-TT-AAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACA
* * *
55361 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGTAGGACGCCTTCTCCTT
1 CCTTTCAAAGCCCACACAAGTTGGTGG----T--CAGTCCTCAAAGAGCAGGAC-AC--CT-C--
* * *
55426 TTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCGGGACG
54 TTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACA
* * * * *
55477 CCTTTTTTTTTAAAGCCCATACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCTTTTT
1 CC-----TTTCAAAGCCCACACAAGTTGGTGG-----TCAGTCCTCAAAGAGCAGGACAC----C
* * *
55542 TTTTAAAGCCCACCCAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGATGCTTTTT
52 TCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA--C----A
* * * *
55600 CTTTTCAAAGCCCACA-AAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACCCCT-TTCGAA
1 CCTTTCAAAGCCCACACAAGTTGGTGG------TCAGTCCTCAAAGAGCAGGACACCTCTT-AAA
*
55663 GCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACA
59 GCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACA
55709 CCTTTCAAAGCCCACACAAGTTGGTGG-CA-TCCTCAAAGAGCAGGACACCTCTTAAAGCCCACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGTCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACA
*
55772 CAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACA
66 CAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACA
* *
55811 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGCCTTTTCTTT
1 CCTTTCAAAGCCCACACAAGTTGGTGG-----T-CAGTCCTCAAAGAGCAGGACACC---TC--T
* * *
55876 TAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCGGGACG
55 TAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACA
* **
55926 CCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGATGCCTTTT
1 CC-TTTC----AAAGCCCACACAAGTTGGTGG-----TCAGTCCTCAAAGAGCAGGACACC---T
* * *
55991 CTTTTAAAGCCCACCCAAGTTGGTGGCACC-TTCAGTCCTCAAAAAGCAGGATGCTTTTT
53 C--TTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA--C----A
* * * *
56050 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACCCCT-TTCGAA
1 CCTTTCAAAGCCCACACAAGTTGGTGG------TCAGTCCTCAAAGAGCAGGACACCTCTT-AAA
*
56114 GCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACA
59 GCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACA
56160 CCTTTCAAAGCCCACACAAGTTGGTGG-CA-TCCTCAAAGAGCAGGACACCTCTTAAAGCCCACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGTCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACA
* *
56223 CAAGTTGGTGGCACCTTTTAGTCCCCAAAGAGCAGGACA
66 CAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACA
*
56262 CCTTTCAAAGCCCACATAAGTTGGTGG-CA-TCCTCAAAGAGCAGGACACCTCTTAAAGCCCACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGTCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACA
*
56325 CAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACA
66 CAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACA
*
56364 CATTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAG
1 CCTTTCAAAGCCCACACAAGTTGGTGG-----T-CAGTCCTCAAAGAGCAGGACACCTCTTAAAG
* *
56429 CCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAAAGCAGGACG
60 CCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACA
*
56474 CCTTTCAAAGCCCACACGAGTTGGTGG
1 CCTTTCAAAGCCCACACAAGTTGGTGG
56501 CACTTTTTAG
Statistics
Matches: 1084, Mismatches: 92, Indels: 169
0.81 0.07 0.13
Matches are distributed among these distances:
102 273 0.25
103 14 0.01
109 23 0.02
110 150 0.14
113 5 0.00
114 32 0.03
115 160 0.15
116 85 0.08
117 32 0.03
118 78 0.07
119 79 0.07
120 69 0.06
121 71 0.07
122 6 0.01
123 6 0.01
124 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (104 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGTCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACA
CAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACA
Found at i:56227 original size:451 final size:449
Alignment explanation
Indices: 55108--56526 Score: 1963
Period size: 451 Copynumber: 3.2 Consensus size: 449
55098 GCTTTTTAGC
* * *
55108 CCTCAAAGAGCAGGATGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCT
1 CCTCAAAAAGCAGGATG-CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCC
* ** * *
55171 CAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCCCAAAGAGCA
65 CAAAGAGCAGGACCCCTTTCGAAGCCCACACAAGTTGGTGGCATTTTCC-AGTCCTCAAAGAGCA
*
55235 GGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC-GAGA
129 GGACACCTT-T-C----AAAGCCCACACAAGTTGGTGG-------CA-TCCTCAAAGAGCAG-GA
* * *
55299 CGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCCA-TCCCCAAAGAGCAGGACCCC
179 CACC---TC-TT-AAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCCCAAAGAGCAGGACACC
* * *
55363 TTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGTAGGACGCCTTCTCCTTTT
238 TTTCAAAGCCCACACAAGTTGGTGGCA-TT-CCAGTCCTCAAAGAGCAGGACGCCTT-TTCTTTT
*
55428 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGCCTTTTTTTTTAAAGC
300 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGC
* *
55493 CCATACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACG-CTTTTTTTTTAAAGCCCACCC
365 CCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCC
55557 AAGTTGGTGGCACCTTCAGT
430 AAGTTGGTGGCACCTTCAGT
*
55577 CCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACA-AAGTTGGTGGCACCTTTCAGTCCCC
1 CCTCAAAAAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCC
55641 AAAGAGCAGGACCCCTTTCGAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGG
66 AAAGAGCAGGACCCCTTTCGAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGG
55706 ACACCTTTCAAAGCCCACACAAGTTGGTGGCATCCTCAAAGAGCAGGACACCTCTTAAAGCCCAC
131 ACACCTTTCAAAGCCCACACAAGTTGGTGGCATCCTCAAAGAGCAGGACACCTCTTAAAGCCCAC
55771 ACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGT
196 ACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGT
*
55836 GGCATTTTCCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAT
261 GGCA--TTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAT
55901 TTTCCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCA
324 TTTCCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCA
*
55966 GTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTCAGT
389 GTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTCAGT
56027 CCTCAAAAAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCC
1 CCTCAAAAAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCC
56092 AAAGAGCAGGACCCCTTTCGAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGG
66 AAAGAGCAGGACCCCTTTCGAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGG
56157 ACACCTTTCAAAGCCCACACAAGTTGGTGGCATCCTCAAAGAGCAGGACACCTCTTAAAGCCCAC
131 ACACCTTTCAAAGCCCACACAAGTTGGTGGCATCCTCAAAGAGCAGGACACCTCTTAAAGCCCAC
* *
56222 ACAAGTTGGTGGCACCTTTTAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACATAAGTTGGT
196 ACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGT
* *
56287 GG-----CA-TCCTCAAAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCACCT
261 GGCATTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-TT
* * * * **
56341 TT-CAGTCCCCAAAGAGCAGGAC-ACATTTC----AAAGCCCACACAAGTTGGTGGCATTTTCCA
325 TTCCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CA
* * *
56400 GTCCTCAAAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
389 GTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACC-TTCAGT
* * * * *
56457 CCTCAAAAAGCAGGACGC-----C-TTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTC
1 CCTCAAAAAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCC
56516 AAAGAGCAGGA
66 AAAGAGCAGGA
56527 TACACTTTAT
Statistics
Matches: 898, Mismatches: 41, Indels: 67
0.89 0.04 0.07
Matches are distributed among these distances:
424 47 0.05
425 1 0.00
429 26 0.03
430 23 0.03
431 2 0.00
433 25 0.03
434 20 0.02
437 5 0.01
438 43 0.05
439 3 0.00
440 2 0.00
443 18 0.02
444 2 0.00
449 113 0.13
450 174 0.19
451 224 0.25
452 2 0.00
455 17 0.02
456 3 0.00
463 21 0.02
467 1 0.00
468 25 0.03
469 97 0.11
470 4 0.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (449 bp):
CCTCAAAAAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCC
AAAGAGCAGGACCCCTTTCGAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGG
ACACCTTTCAAAGCCCACACAAGTTGGTGGCATCCTCAAAGAGCAGGACACCTCTTAAAGCCCAC
ACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGT
GGCATTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTT
TCCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTCAGT
Found at i:57263 original size:21 final size:21
Alignment explanation
Indices: 57237--57313 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
57227 AAATTATCCA
57237 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
57258 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
* *
57279 AATGTATCGATACA-TTCTACA
1 AATGTATCGATACATTTGTA-G
57300 AATGTATCGATACA
1 AATGTATCGATACA
57314 GGGTCCCAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:57374 original size:19 final size:19
Alignment explanation
Indices: 57350--57465 Score: 103
Period size: 19 Copynumber: 6.7 Consensus size: 19
57340 TTTCAGCGAT
*
57350 TTGTATCGATACATAAATG
1 TTGTATCGATACATAAATA
57369 TTGTATCGATAC----A-A
1 TTGTATCGATACATAAATA
*
57383 -TGTATCGATACATAAGTA
1 TTGTATCGATACATAAATA
57401 TTGTATCGATAC----A-A
1 TTGTATCGATACATAAATA
*
57415 -TGTATCGATACATAAGTA
1 TTGTATCGATACATAAATA
* *
57433 TTGTATCAATACATAAGTA
1 TTGTATCGATACATAAATA
57452 TTGTATCGATACAT
1 TTGTATCGATACAT
57466 TTTTCTGTGT
Statistics
Matches: 79, Mismatches: 6, Indels: 24
0.72 0.06 0.22
Matches are distributed among these distances:
13 22 0.28
14 1 0.01
15 1 0.01
18 2 0.03
19 53 0.67
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAATA
Found at i:57387 original size:32 final size:32
Alignment explanation
Indices: 57351--57445 Score: 163
Period size: 32 Copynumber: 3.0 Consensus size: 32
57341 TTCAGCGATT
* *
57351 TGTATCGATACATAAATGTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
57383 TGTATCGATACATAAGTATTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
*
57415 TGTATCGATACATAAGTATTGTATCAATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
57446 TAAGTATTGT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 60 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:57388 original size:13 final size:13
Alignment explanation
Indices: 57370--57426 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
57360 ACATAAATGT
57370 TGTATCGATACAA
1 TGTATCGATACAA
57383 TGTATCGATACATAAGTA
1 TGTATCGATAC---A--A
57401 TTGTATCGATACAA
1 -TGTATCGATACAA
57415 TGTATCGATACA
1 TGTATCGATACA
57427 TAAGTATTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
14 1 0.03
16 2 0.05
18 1 0.03
19 11 0.29
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:57491 original size:13 final size:13
Alignment explanation
Indices: 57473--57498 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57463 CATTTTTCTG
57473 TGTATCGATACAT
1 TGTATCGATACAT
57486 TGTATCGATACAT
1 TGTATCGATACAT
57499 CTATTCTTTG
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:59899 original size:51 final size:53
Alignment explanation
Indices: 59835--59965 Score: 187
Period size: 51 Copynumber: 2.5 Consensus size: 53
59825 AGTTTCTCAA
* * *
59835 TTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACTAAT
*
59886 TT-TTCTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACTAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACTAAT
59940 TTCTTCACAATCGGGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
59966 CCCGTTAATC
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
50 2 0.03
51 34 0.49
53 10 0.14
54 21 0.30
55 3 0.04
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACTAAT
Found at i:60045 original size:78 final size:80
Alignment explanation
Indices: 59895--60047 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 80
59885 ATTTTCTATA
* * *
59895 ATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACTAATTTCTTCACAATCGGGGATAC
1 ATCGAGGATACTCCAACCCCGACTTTATTTCC-AAAAACACTAATTTCTTCACAATCGGGGATAC
59960 TCCAACCCCGTTAATC
65 TCCAACCCCGTTAATC
* * * *
59976 ATCGAGGATACTCCAACCCCGACTTTATTTCC-AAAATATTGATTT-TTCATAATCGGGGATACT
1 ATCGAGGATACTCCAACCCCGACTTTATTTCCAAAAACACTAATTTCTTCACAATCGGGGATACT
60039 CCAACCCCG
66 CCAACCCCG
60048 GTTTTATTGC
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
78 26 0.40
79 10 0.15
81 29 0.45
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.29
Consensus pattern (80 bp):
ATCGAGGATACTCCAACCCCGACTTTATTTCCAAAAACACTAATTTCTTCACAATCGGGGATACT
CCAACCCCGTTAATC
Found at i:60054 original size:51 final size:51
Alignment explanation
Indices: 59976--60200 Score: 234
Period size: 52 Copynumber: 4.4 Consensus size: 51
59966 CCCGTTAATC
* * * *** *
59976 ATCGAGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTCATA
1 ATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACA
* * * *
60027 ATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCACA
1 ATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTT-CACA
* * * * **
60079 ATCGGGGATACTCCAACCCCGGTTTTATTTTCGAAACACCAATTTTCCTTTA
1 ATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTC-ACA
* * *
60131 ATCGGGGATACTGCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACA
1 ATCGGGGATACTCCAACCCCGATTTTATTTCC-AAAACACCAATTTTTCACA
*
60183 ATCGAGGATACTCCAACC
1 ATCGGGGATACTCCAACC
60201 TCGTCATTTC
Statistics
Matches: 142, Mismatches: 29, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
51 40 0.28
52 89 0.63
53 13 0.09
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
ATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACA
Found at i:60219 original size:28 final size:28
Alignment explanation
Indices: 60183--60259 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
60173 ATTTTTCACA
* * *
60183 ATCGAGGATACTCCAACCTCGTCATTTC
1 ATCGGGGATACTCCAACCCCGTCACTTC
*
60211 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTCACTTC
***
60239 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
60260 GCTTTATTCC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.23, C:0.35, G:0.19, T:0.22
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTCACTTC
Found at i:60392 original size:78 final size:78
Alignment explanation
Indices: 60213--60416 Score: 230
Period size: 78 Copynumber: 2.6 Consensus size: 78
60203 GTCATTTCAT
* * *
60213 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCC-GATTTATTCCCAAAATAT
* * *
60278 TGATTTCTCATAAT
65 CGATTTCTCACAAC
* * * ** *
60292 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTC-TAATCAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTATTCCCAAAAT-AT
*
60356 CGATTTTTCACAAC
65 CGATTTCTCACAAC
* * * *
60370 CGGGGATACTCCAGCCCCGTTATTTTCTAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
60417 TTATTATCTC
Statistics
Matches: 105, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
77 3 0.03
78 60 0.57
79 42 0.40
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTATTCCCAAAATATC
GATTTCTCACAAC
Found at i:63327 original size:14 final size:15
Alignment explanation
Indices: 63298--63327 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
63288 AAATATTATT
63298 AAAAAATAAAATAAG
1 AAAAAATAAAATAAG
63313 AAAAAATAAAA-AAG
1 AAAAAATAAAATAAG
63327 A
1 A
63328 TCGTTGATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (15 bp):
AAAAAATAAAATAAG
Done.