Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007929.1 Hibiscus syriacus cultivar Beakdansim tig00110336_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 398994
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 3
Found at i:250521 original size:14 final size:13
Alignment explanation
Indices: 250477--250523 Score: 60
Period size: 14 Copynumber: 3.5 Consensus size: 13
250467 TGACGTTTCC
250477 ATTA-TATATTAT
1 ATTATTATATTAT
*
250489 ATATAATATATTAT
1 AT-TATTATATTAT
250503 ATTATTGATATTAT
1 ATTATT-ATATTAT
250517 ATTATTA
1 ATTATTA
250524 CAAATATTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
12 2 0.06
13 6 0.19
14 23 0.74
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (13 bp):
ATTATTATATTAT
Found at i:251705 original size:20 final size:18
Alignment explanation
Indices: 251660--251708 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 18
251650 TTTTAATATT
251660 TTATATTATTATTATAGGA
1 TTATATT-TTATTATAGGA
*
251679 TTA-ATTTTATTATTAGTA
1 TTATATTTTATTA-TAGGA
251697 CTTATATTTTAT
1 -TTATATTTTAT
251709 AATATTTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 6 0.23
18 7 0.27
19 6 0.23
20 7 0.27
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (18 bp):
TTATATTTTATTATAGGA
Found at i:251736 original size:29 final size:28
Alignment explanation
Indices: 251690--251744 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
251680 TAATTTTATT
*
251690 ATTAGTACTTATATTTTATAATATTTTGA
1 ATTAGTACTTATAATTTA-AATATTTTGA
*
251719 ATTAGTA-TTATAAATTTACATATTTT
1 ATTAGTACTTAT-AATTTAAATATTTT
251745 TTTATAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.36, C:0.04, G:0.05, T:0.55
Consensus pattern (28 bp):
ATTAGTACTTATAATTTAAATATTTTGA
Found at i:252754 original size:22 final size:21
Alignment explanation
Indices: 252724--252789 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
252714 GCGACCCGGA
* *
252724 TGGAGCCCGAATCGGATCCAG
1 TGGAGCCCGAACCGGAACCAG
*
252745 TGGAGGCCCGAACCTGAACCAG
1 TGGA-GCCCGAACCGGAACCAG
**
252767 TGGAAGCCCGAACCTAAACCAG
1 TGG-AGCCCGAACCGGAACCAG
252789 T
1 T
252790 CCAGCTAGGG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
21 4 0.10
22 34 0.87
23 1 0.03
ACGTcount: A:0.29, C:0.30, G:0.29, T:0.12
Consensus pattern (21 bp):
TGGAGCCCGAACCGGAACCAG
Found at i:253766 original size:25 final size:26
Alignment explanation
Indices: 253723--253784 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 26
253713 TATATTTTTA
253723 TTATGTTTTA-TTATTTTTAT-TCCTT
1 TTAT-TTTTATTTATTTTTATATCCTT
*
253748 TTATCTTTTATTTA-TTTTATCATCTTT
1 TTAT-TTTTATTTATTTTTAT-ATCCTT
253775 TTATTTTTAT
1 TTATTTTTAT
253785 GTTAATTCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 15 0.47
26 9 0.28
27 8 0.25
ACGTcount: A:0.18, C:0.08, G:0.02, T:0.73
Consensus pattern (26 bp):
TTATTTTTATTTATTTTTATATCCTT
Found at i:253988 original size:2 final size:2
Alignment explanation
Indices: 253981--254014 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
253971 GCATTTCATA
253981 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
254015 TACTATTATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:254071 original size:101 final size:99
Alignment explanation
Indices: 253902--254093 Score: 251
Period size: 101 Copynumber: 1.9 Consensus size: 99
253892 GCACTTCCTG
* *
253902 ATATATATATATCATTATTATGCATGTTAATTGTCATGCATTTCATAAATTTACACACTTTTTCA
1 ATATATATATATCACTATTATGCATGTTAATTG--ATGCATTCCATAAATTTACACACTTTTTCA
*
253967 TTGTGCATTTCATAATATATATATATATATATATAT
64 TTGTGCACTTCATAATATATATATATATATATATAT
* * ** *
254003 ATATATATATATTACTATTATGCATGTTAATTG-TGCATTCCATGAATTTACTTATTTTTCTAGC
1 ATATATATATATCACTATTATGCATGTTAATTGATGCATTCCATAAATTTACACACTTTT-T--C
*
254067 ATTGTGCACTTCCTAATATATATATAT
63 ATTGTGCACTTCATAATATATATATAT
254094 TTCATTATTA
Statistics
Matches: 79, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
98 21 0.27
99 1 0.01
101 57 0.72
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.47
Consensus pattern (99 bp):
ATATATATATATCACTATTATGCATGTTAATTGATGCATTCCATAAATTTACACACTTTTTCATT
GTGCACTTCATAATATATATATATATATATATAT
Found at i:254104 original size:81 final size:78
Alignment explanation
Indices: 254001--254193 Score: 219
Period size: 81 Copynumber: 2.4 Consensus size: 78
253991 ATATATATAT
* * **
254001 ATATATATATATATTACTATTATGCATGTTAATTG-TGCATTCCATGAATTTACTTATTTTTCTA
1 ATATATATATATATTATTATTATGCATGTTAATTGATGCATTCCATAAATTTACACA-TTTT-T-
*
254065 GCATTGTGCACTTCCTA
63 -CATTGTGCACTTCATA
* * *
254082 ATATATATATAT-TTCATTATTATGCATGTTAGTTGTCATGTATTTCATAAATTTACACATTTTT
1 ATATATATATATATT-ATTATTATGCATGTTAATTG--ATGCATTCCATAAATTTACACATTTTT
*
254146 CATTGTGCATTTCATA
63 CATTGTGCACTTCATA
254162 ATATATATATATATATATTATTATGCATGTTA
1 ATATATATATATAT-TATTATTATGCATGTTA
254194 GCTGTCTATA
Statistics
Matches: 97, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
80 28 0.29
81 47 0.48
82 2 0.02
83 4 0.04
84 16 0.16
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.49
Consensus pattern (78 bp):
ATATATATATATATTATTATTATGCATGTTAATTGATGCATTCCATAAATTTACACATTTTTCAT
TGTGCACTTCATA
Found at i:259318 original size:84 final size:84
Alignment explanation
Indices: 259197--261001 Score: 2302
Period size: 84 Copynumber: 21.4 Consensus size: 84
259187 AAAGTACCTT
*
259197 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGTTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
* *
259262 GGCAAGAAGTGTTATCTAC
66 GGCAAGAAGGGTTATCTGC
* * * * *
259281 CAACAAAATACCTTCGAGTTCGATTACAATAAACTCAAAGGCACATCATTTGCAGCATAACTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
259346 GGCAAGAAGGGTTATCTGC
66 GGCAAGAAGGGTTATCTGC
* * * * *
259365 CAACAAAAGACCTTCGAGTTTGATTACACTCAGTTCAAAGGCACATCATTCGTAGCATAACTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
* *
259430 GGTAAGAA-GGATATCTGC
66 GGCAAGAAGGGTTATCTGC
* * ** *
259448 CAACAAAAGACCTTCGAGTTTGATTACACTCAACTCAAAAACATATCATTTGCAGCATAGCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
* *
259513 GGCAAGAATGGCTATCTGC
66 GGCAAGAAGGGTTATCTGC
* *
259532 CAACAAAAGACCTTTGAGTTTGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
* * *
259597 GGAAAGAAGGGCTATATGC
66 GGCAAGAAGGGTTATCTGC
* *
259616 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCCAATTTGCAACATAGCTT
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAT-C-ATTTGCAGCATAGCTC
* *
259681 AAGACGAA-AAGGGCTATCTGC
64 AAGGC-AAGAAGGGTTATCTGC
* * *
259702 CAATAAAGGA-C--C---TTCGATTACACTCAGCTCAAAGACACATCCAATTTGCAGCATAGCTC
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAT-C-ATTTGCAGCATAGCTC
* *
259761 AAGGCGAGAAGGGCTATCTGC
64 AAGGCAAGAAGGGTTATCTGC
*
259782 CAACAAAAGACCTTTGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
* * * *
259847 GGTAATAATGGTTATCTAC
66 GGCAAGAAGGGTTATCTGC
* * * * *
259866 CAACAAAAGACCTTCGAGTTCGATTACACTCAGTTCAAAGGCACATTATTTGTAGCGTAACTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
259931 GGCAAGAAGGGTTATCTGC
66 GGCAAGAAGGGTTATCTGC
* *
259950 CAACAAAAGACCTTCGAGTTCGATTACAATTAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
*
260015 GGCAAGAAGGGTTGTCTGC
66 GGCAAGAAGGGTTATCTGC
* * *
260034 CAACAAATGACCTTCGAGTTCGATTACACTAAGCTCAAAGGCACATCATTTTCTAGCATAGCTCA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGC-AGCATAGCTCA
260099 AGGCAAGAAGGGTTATCTGC
65 AGGCAAGAAGGGTTATCTGC
* *
260119 CAACAAAAAACCTTCGAGTTCGATTACACTTAGCTC-AAGGCACATCATTTGCAGCATAGCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
*
260183 GGAAAGAAGGGTTATCTGC
66 GGCAAGAAGGGTTATCTGC
* * * *
260202 CAACAAAAGACCTTCGAGTTCGATTACACACAGCTCAAATGCATATCATTTGCAGTATAGCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
260267 GGCAAGAA-GGTCTATCTGC
66 GGCAAGAAGGGT-TATCTGC
* * * * *
260286 CAACAAAAGACTTTTGAGTTTGATTACACTCAGCTCTAAGGCACATCATTTGCAGCATAGATCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
* * *
260351 GGAAAAAAGGGTTATCTAC
66 GGCAAGAAGGGTTATCTGC
* *
260370 CAAAAAAAGACCTTCGAGTTCGATTACACTCAACTCAAAGGCACATCATTTGCAGCATAGCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
260435 GGCAAGAAGGGTTATCTGC
66 GGCAAGAAGGGTTATCTGC
* * * ** * *
260454 CAACAAAAGACTTTCGAGTTCGATTACACTCAACGCAAACACATATCCAATTTGCAACATAGCTC
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAT-C-ATTTGCAGCATAGCTC
**
260519 AAGGTGAGAAGGGTTATCTGC
64 AAGGCAAGAAGGGTTATCTGC
* * * *
260540 CAACAAAGGAACTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCTAATTTGCAGTATAGCTC
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC--ATTTGCAGCATAGCTC
** * *
260605 AAGGCGGGAAGGGCTATATGC
64 AAGGCAAGAAGGGTTATCTGC
* * * * * *
260626 CAACAAATGACCTTCGAGTTCTATTACACTCAACTCAAAGGCACATCATTTGCATCATAACTTAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
* * *
260691 GGCAAAAAAGGCTATCTGC
66 GGCAAGAAGGGTTATCTGC
* * * * * *
260710 CAACAAAGGACCATCGAGTTTGATTACACTTAGCTCAAAGGCACATCATTTGTAACATAGCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
260775 GGCAAGAAGGGTTATCTGC
66 GGCAAGAAGGGTTATCTGC
* * *
260794 CAACAAAAGGCCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCCAATTTACAACATAGCTC
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAT-C-ATTTGCAGCATAGCTC
* *
260859 AAGGCGATAAGGGTTATCTGC
64 AAGGCAAGAAGGGTTATCTGC
* * * * * * *
260880 CAACAAAAGAACTTCGAGTTCAATTACACTCAGCTCAAAGGCACATTAAAAATTACAACATAACT
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACA-T--CATTTGCAGCATAGCT
* *
260945 CAAGGCAAGAGGGGTTATCTGA
63 CAAGGCAAGAAGGGTTATCTGC
* * * *
260967 CAATAAAA-A-TTATCGAGTTCGATTCCATTCAGCTC
1 CAACAAAAGACCT-TCGAGTTCGATTACACTCAGCTC
261002 GATAACACAT
Statistics
Matches: 1505, Mismatches: 193, Indels: 44
0.86 0.11 0.03
Matches are distributed among these distances:
79 1 0.00
80 69 0.05
81 1 0.00
83 140 0.09
84 875 0.58
85 73 0.05
86 305 0.20
87 41 0.03
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.23
Consensus pattern (84 bp):
CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
GGCAAGAAGGGTTATCTGC
Found at i:272249 original size:9 final size:9
Alignment explanation
Indices: 272222--272282 Score: 65
Period size: 9 Copynumber: 6.9 Consensus size: 9
272212 TATGTACATA
272222 TATTTTTAT
1 TATTTTTAT
272231 TATCTTTTAT
1 TAT-TTTTAT
272241 TATTTTTAT
1 TATTTTTAT
272250 TA-TTTTAT
1 TATTTTTAT
272258 T-TATTTTAT
1 TAT-TTTTAT
* *
272267 CATCTTT-T
1 TATTTTTAT
272275 TATTTTTA
1 TATTTTTA
272283 AGTTAAGTCT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
8 13 0.30
9 20 0.47
10 10 0.23
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (9 bp):
TATTTTTAT
Found at i:272257 original size:17 final size:17
Alignment explanation
Indices: 272222--272282 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
272212 TATGTACATA
272222 TATTTTTATTATCTTTTAT
1 TATTTTTATTA--TTTTAT
272241 TATTTTTATTATTTTAT
1 TATTTTTATTATTTTAT
*
272258 T-TATTTTATCATCTTT-T
1 TAT-TTTTATTAT-TTTAT
272275 TATTTTTA
1 TATTTTTA
272283 AGTTAAGTCT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
16 1 0.03
17 22 0.58
18 4 0.11
19 11 0.29
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (17 bp):
TATTTTTATTATTTTAT
Found at i:272414 original size:2 final size:2
Alignment explanation
Indices: 272407--272468 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
272397 GCACTTCTTG
272407 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
272449 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
272469 CATTATTATG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:272651 original size:14 final size:13
Alignment explanation
Indices: 272594--272664 Score: 54
Period size: 14 Copynumber: 5.2 Consensus size: 13
272584 ATTTTTTCCC
*
272594 TTTTATATTACTTT
1 TTTTATTTTA-TTT
* *
272608 GTTT-TTTCATTT
1 TTTTATTTTATTT
* *
272620 TTTTCTTTAATTT
1 TTTTATTTTATTT
272633 ATTTTATATTTATTT
1 -TTTTAT-TTTATTT
272648 TTTTATTATTATTT
1 TTTTATT-TTATTT
272662 TTT
1 TTT
272665 CTAACATTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
12 6 0.13
13 11 0.24
14 23 0.50
15 6 0.13
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.76
Consensus pattern (13 bp):
TTTTATTTTATTT
Found at i:273347 original size:24 final size:21
Alignment explanation
Indices: 273320--273387 Score: 73
Period size: 24 Copynumber: 3.0 Consensus size: 21
273310 TTTTAATAGT
*
273320 ATTTTTAGTTTTTTTAATAATTTA
1 ATTTTTA-TATTTTT-AT-ATTTA
273344 ATTTTTATATTTTTATATTTA
1 ATTTTTATATTTTTATATTTA
273365 ACTTTTTGAATATTTTTATATTT
1 A-TTTTT--ATATTTTTATATTT
273388 TATATTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
21 6 0.15
22 7 0.17
23 6 0.15
24 21 0.52
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.68
Consensus pattern (21 bp):
ATTTTTATATTTTTATATTTA
Found at i:273400 original size:24 final size:24
Alignment explanation
Indices: 273350--273413 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
273340 TTTAATTTTT
* **
273350 ATATTTTTATATTTAACTTTTTGA
1 ATATTTTTATATTTTACTTTTAAA
273374 ATATTTTTATATTTTA-TATTTAAA
1 ATATTTTTATATTTTACT-TTTAAA
273398 ATAATTTTTAT-TTTTA
1 AT-ATTTTTATATTTTA
273414 AAAATTAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 1 0.03
24 26 0.74
25 8 0.23
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (24 bp):
ATATTTTTATATTTTACTTTTAAA
Found at i:273421 original size:25 final size:24
Alignment explanation
Indices: 273396--273444 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
273386 TTTATATTTA
273396 AAATAATTTTTATTTTTAAAAATT
1 AAATAATTTTTATTTTTAAAAATT
* *
273420 AAATAATCCCTTTAATTTTAAAAAT
1 AAATAAT--TTTTATTTTTAAAAAT
273445 ATCATTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
26 14 0.67
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (24 bp):
AAATAATTTTTATTTTTAAAAATT
Found at i:274070 original size:39 final size:38
Alignment explanation
Indices: 273957--274208 Score: 185
Period size: 39 Copynumber: 6.8 Consensus size: 38
273947 AATCAGTTTT
* **
273957 AAATATATATATTATATAGTTTTGAAAATGATTTTTGA
1 AAATATATATAATATATAGTTTTGAAAACAATTTTTGA
* * *
273995 AAATATGTATATATATTTTATAG-TTTGTAAATAATTTTTGA
1 AAATA--TATATA-A-TATATAGTTTTGAAAACAATTTTTGA
274036 AAATATATATAATATATAGTTTTTGAAAACAATTTTTGA
1 AAATATATATAATATATAG-TTTTGAAAACAATTTTTGA
* *
274075 AAATGTATATATTATATAGCTTTTGAAAAC-A----T--
1 AAATATATATAATATATAG-TTTTGAAAACAATTTTTGA
* * *
274107 --ATATA-AT-ATATGGT-TTTTTGAAAAC-ATTTTGGA
1 AAATATATATAATAT-ATAGTTTTGAAAACAATTTTTGA
*
274140 AAATATATATAATATATAGTTTTTAAAA-ACA-TTTTGAA
1 AAATATATATAATATATAGTTTTGAAAACA-ATTTTTG-A
274178 AATATATATATAATATATAGTTTTTGAAAAC
1 AA-ATATATATAATATATAG-TTTTGAAAAC
274209 TATATAATAT
Statistics
Matches: 170, Mismatches: 20, Indels: 45
0.72 0.09 0.19
Matches are distributed among these distances:
27 11 0.06
28 3 0.02
29 3 0.02
30 4 0.02
34 1 0.01
35 5 0.03
36 3 0.02
37 22 0.13
38 11 0.06
39 66 0.39
40 14 0.08
41 21 0.12
42 6 0.04
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.45
Consensus pattern (38 bp):
AAATATATATAATATATAGTTTTGAAAACAATTTTTGA
Found at i:274109 original size:26 final size:27
Alignment explanation
Indices: 274069--274133 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
274059 TGAAAACAAT
** *
274069 TTTTGAAAATGTATATATTATATAG-C
1 TTTTGAAAACATATATAATATATAGTC
* *
274095 TTTTGAAAACATATATAATATATGGTT
1 TTTTGAAAACATATATAATATATAGTC
274122 TTTTGAAAACAT
1 TTTTGAAAACAT
274134 TTTGGAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
26 21 0.64
27 12 0.36
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.45
Consensus pattern (27 bp):
TTTTGAAAACATATATAATATATAGTC
Found at i:274109 original size:65 final size:65
Alignment explanation
Indices: 274030--274171 Score: 205
Period size: 65 Copynumber: 2.2 Consensus size: 65
274020 TGTAAATAAT
* * * *
274030 TTTTGAAAATATATATAATATATAG-TTTTTGAAAACAATTTTTGAAAATGTATATATTATATAG
1 TTTTGAAAACATATATAATATATAGTTTTTTGAAAAC-ATTTTGGAAAATATATATAATATATAG
274094 C
65 C
* *
274095 TTTTGAAAACATATATAATATATGGTTTTTTGAAAACATTTTGGAAAATATATATAATATATAGT
1 TTTTGAAAACATATATAATATATAGTTTTTTGAAAACATTTTGGAAAATATATATAATATATAGC
*
274160 TTTTAAAAACAT
1 TTTTGAAAACAT
274172 TTTGAAAATA
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
65 58 0.84
66 11 0.16
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.44
Consensus pattern (65 bp):
TTTTGAAAACATATATAATATATAGTTTTTTGAAAACATTTTGGAAAATATATATAATATATAGC
Found at i:274146 original size:37 final size:37
Alignment explanation
Indices: 274095--274301 Score: 167
Period size: 39 Copynumber: 5.8 Consensus size: 37
274085 ATTATATAGC
* *
274095 TTTTGAAAACATATATAATATATGGTTTTTTGAAAACA
1 TTTTGAAAATATATATAATATATAG-TTTTTGAAAACA
*
274133 TTTTGGAAAATATATATAATATATAGTTTTTAAAAACA
1 TTTT-GAAAATATATATAATATATAGTTTTTGAAAACA
274171 TTTTGAAAATATATATATAATATATAGTTTTTGAAAAC-
1 TTTTG-AAA-ATATATATAATATATAGTTTTTGAAAACA
274209 -----------TATATAATATATAG-TTTTGAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
* *
274234 TTTTTAAAAAAATATATATAATATATAG-TTTT-AAAATA
1 -TTTT--GAAAATATATATAATATATAGTTTTTGAAAACA
*
274272 TTTTTG-AAATATATATATACATATAGTTTT
1 -TTTTGAAAATATATATA-ATATATAGTTTT
274302 GAGAAATAAT
Statistics
Matches: 142, Mismatches: 7, Indels: 41
0.75 0.04 0.22
Matches are distributed among these distances:
24 10 0.07
25 14 0.10
35 11 0.08
36 7 0.05
37 4 0.03
38 32 0.23
39 64 0.45
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.44
Consensus pattern (37 bp):
TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
Found at i:274218 original size:25 final size:24
Alignment explanation
Indices: 274184--274232 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 24
274174 TGAAAATATA
274184 TATATAATATATAGTTTTTGAAAAC
1 TATATAATATATAG-TTTTGAAAAC
274209 TATATAATATATAGTTTTGAAAAC
1 TATATAATATATAGTTTTGAAAAC
274233 ATTTTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (24 bp):
TATATAATATATAGTTTTGAAAAC
Found at i:274224 original size:64 final size:64
Alignment explanation
Indices: 274145--274265 Score: 199
Period size: 64 Copynumber: 1.9 Consensus size: 64
274135 TTGGAAAATA
* *
274145 TATATAATATATAGTTTTTAAAAACA-TTTTGAAAATATATATATAATATATAGTTTTTGAAAAC
1 TATATAATATATAG-TTTTAAAAACATTTTTAAAAAAATATATATAATATATAGTTTTTGAAAAC
*
274209 TATATAATATATAGTTTTGAAAACATTTTTAAAAAAATATATATAATATATAGTTTT
1 TATATAATATATAGTTTTAAAAACATTTTTAAAAAAATATATATAATATATAGTTTT
274266 AAAATATTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
63 10 0.19
64 43 0.81
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (64 bp):
TATATAATATATAGTTTTAAAAACATTTTTAAAAAAATATATATAATATATAGTTTTTGAAAAC
Found at i:274257 original size:39 final size:38
Alignment explanation
Indices: 274209--274327 Score: 134
Period size: 39 Copynumber: 3.1 Consensus size: 38
274199 TTTTGAAAAC
*
274209 TATATAATATATAGTTTTGAAAACATTTTTAAAAAAATA
1 TATATAATATATAGTTTTGAAAAAATTTTT-AAAAAATA
* * *
274248 TATATAATATATAGTTTT-AAAATATTTTTGAAATATA
1 TATATAATATATAGTTTTGAAAAAATTTTTAAAAAATA
* *
274285 TATAT-ACATATAGTTTTGAGAAATAATTTTTTAAAACATA
1 TATATAATATATAGTTTTGA-AAA-AA-TTTTTAAAAAATA
274325 TAT
1 TAT
274328 TATTATTATT
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
36 11 0.16
37 12 0.17
38 13 0.19
39 19 0.28
40 14 0.20
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.45
Consensus pattern (38 bp):
TATATAATATATAGTTTTGAAAAAATTTTTAAAAAATA
Found at i:274257 original size:75 final size:76
Alignment explanation
Indices: 274178--274327 Score: 175
Period size: 75 Copynumber: 2.0 Consensus size: 76
274168 ACATTTTGAA
* *
274178 AATATATA-TATAATATATAGTTTTTGAAA-ACTATATA-ATATATAGTTTTGA-AAA-CATTTT
1 AATATATAGTATAA-A-ATA-TTTTTGAAATA-TATATATACATATAGTTTTGAGAAATAATTTT
274238 TAAAAAAATATATAT
62 TAAAAAAATATATAT
* *
274253 AATATATAGTTTTAAAATATTTTTGAAATATATATATACATATAGTTTTGAGAAATAATTTTTTA
1 AATATATAG-TATAAAATATTTTTGAAATATATATATACATATAGTTTTGAGAAATAATTTTTAA
*
274318 AAACATATAT
65 AAAAATATAT
274328 TATTATTATT
Statistics
Matches: 64, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
74 15 0.23
75 25 0.39
76 4 0.06
77 20 0.31
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (76 bp):
AATATATAGTATAAAATATTTTTGAAATATATATATACATATAGTTTTGAGAAATAATTTTTAAA
AAAATATATAT
Found at i:275440 original size:28 final size:28
Alignment explanation
Indices: 275389--275459 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
275379 TAATTTAAGC
* *
275389 ATTTTTCTTTTTA-GTTATTCATTTTTTT
1 ATTTTTCTTTTTATTTTAGTCA-TTTTTT
*
275417 CTTTTTCTTTTTATTTTAGT-ATTTTTT
1 ATTTTTCTTTTTATTTTAGTCATTTTTT
*
275444 ATTTAT-TTTTTATTTT
1 ATTTTTCTTTTTATTTT
275460 TCTTTCTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 10 0.27
27 10 0.27
28 13 0.35
29 4 0.11
ACGTcount: A:0.14, C:0.06, G:0.03, T:0.77
Consensus pattern (28 bp):
ATTTTTCTTTTTATTTTAGTCATTTTTT
Found at i:275443 original size:49 final size:49
Alignment explanation
Indices: 275347--275442 Score: 142
Period size: 49 Copynumber: 2.0 Consensus size: 49
275337 GTCTTTTAAA
275347 TTTTTAGTTATTCATTTTTTTCCTTTCTTTCTTAATTTAAGCATTTTTC
1 TTTTTAGTTATTCATTTTTTTCCTTTCTTTCTTAATTTAAGCATTTTTC
* * *
275396 TTTTTAGTTATTCATTTTTTTCTTTTTCTTT-TT-ATTTTAGTATTTTT
1 TTTTTAGTTATTCATTTTTTTC-CTTTCTTTCTTAATTTAAGCATTTTT
275443 TATTTATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
48 12 0.28
49 24 0.56
50 7 0.16
ACGTcount: A:0.15, C:0.10, G:0.04, T:0.71
Consensus pattern (49 bp):
TTTTTAGTTATTCATTTTTTTCCTTTCTTTCTTAATTTAAGCATTTTTC
Found at i:276837 original size:7 final size:7
Alignment explanation
Indices: 276825--276886 Score: 70
Period size: 7 Copynumber: 8.9 Consensus size: 7
276815 TATGTGATAA
276825 GGTTTAG
1 GGTTTAG
276832 GGTTTAG
1 GGTTTAG
*
276839 AGTTTAG
1 GGTTTAG
* *
276846 AGTTTAT
1 GGTTTAG
*
276853 GATTTAG
1 GGTTTAG
276860 GGTTTAG
1 GGTTTAG
*
276867 GATTTAG
1 GGTTTAG
276874 GGTTTAG
1 GGTTTAG
*
276881 AGTTTA
1 GGTTTA
276887 TATGATACAA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 46 1.00
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:276845 original size:14 final size:14
Alignment explanation
Indices: 276826--276886 Score: 81
Period size: 14 Copynumber: 4.4 Consensus size: 14
276816 ATGTGATAAG
276826 GTTTAGGGTTTAGA
1 GTTTAGGGTTTAGA
*
276840 GTTTAGAGTTTATGA
1 GTTTAGGGTTTA-GA
276855 -TTTAGGGTTTAG-
1 GTTTAGGGTTTAGA
276867 GATTTAGGGTTTAGA
1 G-TTTAGGGTTTAGA
276882 GTTTA
1 GTTTA
276887 TATGATACAA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
13 1 0.02
14 37 0.90
15 3 0.07
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (14 bp):
GTTTAGGGTTTAGA
Found at i:276899 original size:28 final size:28
Alignment explanation
Indices: 276868--276945 Score: 102
Period size: 28 Copynumber: 2.8 Consensus size: 28
276858 AGGGTTTAGG
*
276868 ATTTAGGGTTTAGAGTTTATATGATACA
1 ATTTAAGGTTTAGAGTTTATATGATACA
* * **
276896 ATTTAAGGTTTAGATTTTATGTGATAGG
1 ATTTAAGGTTTAGAGTTTATATGATACA
*
276924 ATTTAAGGTTTAGGGTTTATAT
1 ATTTAAGGTTTAGAGTTTATAT
276946 ATTAAGGGTT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.29, C:0.01, G:0.23, T:0.46
Consensus pattern (28 bp):
ATTTAAGGTTTAGAGTTTATATGATACA
Found at i:276941 original size:35 final size:35
Alignment explanation
Indices: 276897--276977 Score: 83
Period size: 35 Copynumber: 2.3 Consensus size: 35
276887 TATGATACAA
* * * *
276897 TTTAAGGTTTAGATTTTATGTGATAGGATTTA-AGG
1 TTTAGGGTTTAGATATTAAGGGATAGGATTTAGA-G
* * *
276932 TTTAGGGTTTATATATTAAGGGTTGGGATTTAGAG
1 TTTAGGGTTTAGATATTAAGGGATAGGATTTAGAG
276967 TTTAGGGTTTA
1 TTTAGGGTTTA
276978 AGTTATATAC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
35 37 0.97
36 1 0.03
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (35 bp):
TTTAGGGTTTAGATATTAAGGGATAGGATTTAGAG
Found at i:279945 original size:19 final size:19
Alignment explanation
Indices: 279921--279972 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
279911 AATAGACAGA
279921 GTGCATCGATGCATAGCTG
1 GTGCATCGATGCATAGCTG
*
279940 GTGCATCGATGCATGGCTG
1 GTGCATCGATGCATAGCTG
279959 GTGCATCGATGCAT
1 GTGCATCGATGCAT
279973 CAAATGCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.19, C:0.21, G:0.33, T:0.27
Consensus pattern (19 bp):
GTGCATCGATGCATAGCTG
Found at i:280009 original size:65 final size:62
Alignment explanation
Indices: 279939--280103 Score: 174
Period size: 65 Copynumber: 2.6 Consensus size: 62
279929 ATGCATAGCT
*
279939 GGTGCATCGATGCATGGCTGGTGCATCGATGCATCAAATGCATTCGATGTTTTC-ATAAAATCCT
1 GGTGCATCGATGCATGG-TGGTGCATCGATGCATCAAATGCATTAGATG--TTCAATAAAAT--T
280003 CA
61 CA
* * * **
280005 -GTGCATCGGTGCATGGTATGTGCATCGATGCATGAAATGCATTAGATGTTCAATTTAATTCA
1 GGTGCATCGATGCATGGT-GGTGCATCGATGCATCAAATGCATTAGATGTTCAATAAAATTCA
280067 TGGTGCATCGATGCATGGAATGGTGCATCGATG-ATCA
1 -GGTGCATCGATGCATGG--TGGTGCATCGATGCATCA
280104 CTCAAAAAAA
Statistics
Matches: 84, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
62 3 0.04
63 3 0.04
64 24 0.29
65 53 0.63
66 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (62 bp):
GGTGCATCGATGCATGGTGGTGCATCGATGCATCAAATGCATTAGATGTTCAATAAAATTCA
Found at i:280030 original size:84 final size:83
Alignment explanation
Indices: 279882--280038 Score: 201
Period size: 84 Copynumber: 1.9 Consensus size: 83
279872 AAGAGTGAAA
* *
279882 CGATGCATCAAGTGCATTCGATGTTTCAAAATAGACAGAGTGCATCGATGCATAGCTGGTGCATC
1 CGATGCATCAAATGCATTCGATGTTTCAAAATAGACACAGTGCATCGATGCATAGCTGGTGCATC
279947 GATGCATGGCTGGTGCAT
66 GATGCATGGCTGGTGCAT
** * * * *
279965 CGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAGTGCATCGGTGCAT-GGTATGTGC
1 CGATGCATCAAATGCATTCGATG-TTTCA-AAATAGACACAGTGCATCGATGCATAGCT-GGTGC
280028 ATCGATGCATG
63 ATCGATGCATG
280039 AAATGCATTA
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
83 24 0.38
84 36 0.57
85 3 0.05
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (83 bp):
CGATGCATCAAATGCATTCGATGTTTCAAAATAGACACAGTGCATCGATGCATAGCTGGTGCATC
GATGCATGGCTGGTGCAT
Found at i:285536 original size:20 final size:19
Alignment explanation
Indices: 285488--285576 Score: 74
Period size: 19 Copynumber: 4.7 Consensus size: 19
285478 GAGTCTGATA
*
285488 TTGGAAATCAGATTTT-AG
1 TTGGAAACCAGATTTTAAG
* *
285506 TTGCAACCCAGAATTTTAAG
1 TTGGAAACCAG-ATTTTAAG
*
285526 TTGGAAACCAGATTTTAGG
1 TTGGAAACCAGATTTTAAG
* * *
285545 TTGCAACCCAGATTCTATA-
1 TTGGAAACCAGATTTTA-AG
*
285564 TTGGAAATCAGAT
1 TTGGAAACCAGAT
285577 ACGTCAGCTG
Statistics
Matches: 55, Mismatches: 13, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
18 8 0.15
19 36 0.65
20 11 0.20
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.33
Consensus pattern (19 bp):
TTGGAAACCAGATTTTAAG
Found at i:285557 original size:19 final size:18
Alignment explanation
Indices: 285496--285558 Score: 81
Period size: 19 Copynumber: 3.3 Consensus size: 18
285486 TATTGGAAAT
285496 CAGATTTTAGTTGCAACC
1 CAGATTTTAGTTGCAACC
* *
285514 CAGAATTTTAAGTTGGAAAC
1 CAG-ATTTT-AGTTGCAACC
285534 CAGATTTTAGGTTGCAACC
1 CAGATTTTA-GTTGCAACC
285553 CAGATT
1 CAGATT
285559 CTATATTGGA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
18 4 0.11
19 23 0.61
20 11 0.29
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (18 bp):
CAGATTTTAGTTGCAACC
Found at i:285568 original size:38 final size:38
Alignment explanation
Indices: 285485--285576 Score: 134
Period size: 38 Copynumber: 2.4 Consensus size: 38
285475 ATTGAGTCTG
*
285485 ATATTGGAAATCAGATTTTAGTTGCAACCCAGAATTTT
1 ATATTGGAAATCAGATTTTAGTTGCAACCCAGAATTCT
*
285523 A-AGTTGGAAACCAGATTTTAGGTTGCAACCCAG-ATTCT
1 ATA-TTGGAAATCAGATTTTA-GTTGCAACCCAGAATTCT
285561 ATATTGGAAATCAGAT
1 ATATTGGAAATCAGAT
285577 ACGTCAGCTG
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
37 1 0.02
38 34 0.71
39 13 0.27
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (38 bp):
ATATTGGAAATCAGATTTTAGTTGCAACCCAGAATTCT
Found at i:288957 original size:20 final size:20
Alignment explanation
Indices: 288927--289014 Score: 95
Period size: 20 Copynumber: 4.3 Consensus size: 20
288917 GTTTCCAAAT
*
288927 TCGCAACGCGAATATGTAAA
1 TCGCAACGCGAATTTGTAAA
** * **
288947 TCGCATTGCGATTTTCCAAA
1 TCGCAACGCGAATTTGTAAA
* *
288967 TTCGCAACGCGAATCTATAAA
1 -TCGCAACGCGAATTTGTAAA
288988 TCGCAACGCGAATTTGTAAA
1 TCGCAACGCGAATTTGTAAA
289008 TCGCAAC
1 TCGCAAC
289015 ACAGATGTCA
Statistics
Matches: 53, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 39 0.74
21 14 0.26
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (20 bp):
TCGCAACGCGAATTTGTAAA
Found at i:289031 original size:20 final size:20
Alignment explanation
Indices: 289008--289254 Score: 147
Period size: 20 Copynumber: 12.3 Consensus size: 20
288998 AATTTGTAAA
289008 TCGCAACACAGATGTCAAAT
1 TCGCAACACAGATGTCAAAT
* *
289028 TCGCAACACATAAGTCAAAT
1 TCGCAACACAGATGTCAAAT
* *
289048 TCGCAACGC-GATAATCAAAT
1 TCGCAACACAGAT-GTCAAAT
*
289068 TCGCAACACTA-AAGTCAAAT
1 TCGCAACAC-AGATGTCAAAT
* **
289088 TCACAACGTGA-ATCTGT-AAA-
1 TCGCAAC---ACAGATGTCAAAT
*
289108 TCGCAACGC-GAATTTGT-AAA-
1 TCGCAACACAG-A--TGTCAAAT
*
289128 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAGATGTCAAAT
*
289148 TCGCAACGC-GATAGTCAAAT
1 TCGCAACACAGAT-GTCAAAT
* *
289168 TCGCAACACTGAATTTCAAAT
1 TCGCAACACAG-ATGTCAAAT
* *
289189 TCGCAACACAAAAGTCAAAT
1 TCGCAACACAGATGTCAAAT
*
289209 TCGCAACGC-GATAGTCAAAT
1 TCGCAACACAGAT-GTCAAAT
* *
289229 TCGCAACGC-GAAAGTCAAAT
1 TCGCAACACAG-ATGTCAAAT
289249 TCGCAA
1 TCGCAA
289255 AGCGCATTTA
Statistics
Matches: 178, Mismatches: 30, Indels: 38
0.72 0.12 0.15
Matches are distributed among these distances:
18 2 0.01
19 7 0.04
20 141 0.79
21 23 0.13
22 4 0.02
23 1 0.01
ACGTcount: A:0.40, C:0.24, G:0.15, T:0.20
Consensus pattern (20 bp):
TCGCAACACAGATGTCAAAT
Found at i:289032 original size:40 final size:41
Alignment explanation
Indices: 288988--289254 Score: 204
Period size: 40 Copynumber: 6.7 Consensus size: 41
288978 AATCTATAAA
*
288988 TCGCAACGCGAATTTGT-AAA-TCGCAACACAGATGTCAAAT
1 TCGCAACGCGAA-TAGTCAAATTCGCAACACAGATGTCAAAT
* * *
289028 TCGCAACAC--ATAAGTCAAATTCGCAACGC-GATAATCAAAT
1 TCGCAACGCGAAT-AGTCAAATTCGCAACACAGAT-GTCAAAT
* * * **
289068 TCGCAACACTAA-AGTCAAATTCACAACGTGA-ATCTGT-AAA-
1 TCGCAACGCGAATAGTCAAATTCGCAAC---ACAGATGTCAAAT
* *
289108 TCGCAACGCGAATTTGT-AAA-TCGCAACACAGAAGTCAAAT
1 TCGCAACGCGAA-TAGTCAAATTCGCAACACAGATGTCAAAT
* *
289148 TCGCAACGCG-ATAGTCAAATTCGCAACACTGAATTTCAAAT
1 TCGCAACGCGAATAGTCAAATTCGCAACACAG-ATGTCAAAT
* * *
289189 TCGCAACAC-AAAAGTCAAATTCGCAACGC-GATAGTCAAAT
1 TCGCAACGCGAATAGTCAAATTCGCAACACAGAT-GTCAAAT
289229 TCGCAACGCGAA-AGTCAAATTCGCAA
1 TCGCAACGCGAATAGTCAAATTCGCAA
289255 AGCGCATTTA
Statistics
Matches: 181, Mismatches: 25, Indels: 42
0.73 0.10 0.17
Matches are distributed among these distances:
37 2 0.01
38 9 0.05
39 15 0.08
40 110 0.61
41 40 0.22
42 4 0.02
43 1 0.01
ACGTcount: A:0.40, C:0.24, G:0.15, T:0.21
Consensus pattern (41 bp):
TCGCAACGCGAATAGTCAAATTCGCAACACAGATGTCAAAT
Found at i:289189 original size:161 final size:161
Alignment explanation
Indices: 288922--289250 Score: 425
Period size: 161 Copynumber: 2.0 Consensus size: 161
288912 ACCCAGTTTC
* ** * *
288922 CAAATTCGCAACGCGAATATGTAAATCGCATTGCGATTTTCCAAATTCGCAACGCGAATCTATAA
1 CAAATTCACAACGCGAATATGTAAATCGCAACGCGAATTTCCAAATTCGCAACACGAATCTATAA
* *
288987 ATCGCAACGCGAATTTGTAAATCGCAACACAGATGTCAAATTCGCAACACATAAGTCAAATTCGC
66 ATCGCAACGCGAATTAGTAAATCGCAACACAGATGTCAAATTCGCAACACAAAAGTCAAATTCGC
*
289052 AACGCGATAATCAAATTCGCAACACTAAAGT
131 AACGCGATAATCAAATTCGCAACACGAAAGT
* * **
289083 CAAATTCACAACGTGAATCTGTAAATCGCAACGCGAATTTGTAAA-TCGCAACACAGAAGTC-A-
1 CAAATTCACAACGCGAATATGTAAATCGCAACGCGAATTTCCAAATTCGCAACAC-GAA-TCTAT
* * *
289145 AATTCGCAACGCG-A-TAGTCAAATTCGCAACACTGAATTTCAAATTCGCAACACAAAAGTCAAA
64 AAATCGCAACGCGAATTAGT-AAA-TCGCAACACAG-ATGTCAAATTCGCAACACAAAAGTCAAA
* *
289208 TTCGCAACGCGATAGTCAAATTCGCAACGCGAAAGT
126 TTCGCAACGCGATAATCAAATTCGCAACACGAAAGT
289244 CAAATTC
1 CAAATTC
289251 GCAAAGCGCA
Statistics
Matches: 146, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
158 3 0.02
159 4 0.03
160 30 0.21
161 107 0.73
162 2 0.01
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.22
Consensus pattern (161 bp):
CAAATTCACAACGCGAATATGTAAATCGCAACGCGAATTTCCAAATTCGCAACACGAATCTATAA
ATCGCAACGCGAATTAGTAAATCGCAACACAGATGTCAAATTCGCAACACAAAAGTCAAATTCGC
AACGCGATAATCAAATTCGCAACACGAAAGT
Found at i:289272 original size:19 final size:20
Alignment explanation
Indices: 289248--289288 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
289238 GAAAGTCAAA
*
289248 TTCGCAAAGCGCA-TTTATT
1 TTCGCAAAGCGAATTTTATT
*
289267 TTCGCAACGCGAATTTTATT
1 TTCGCAAAGCGAATTTTATT
289287 TT
1 TT
289289 ATTTTCGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (20 bp):
TTCGCAAAGCGAATTTTATT
Found at i:291699 original size:21 final size:21
Alignment explanation
Indices: 291653--291701 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
291643 CAATAGTGCG
* *
291653 CTACGTGATGAGGTATCTACT
1 CTACGTGATGAGGTAGCCACT
* *
291674 TTACGTGATGAGGTAGCCGCT
1 CTACGTGATGAGGTAGCCACT
291695 CTACGTG
1 CTACGTG
291702 GGATTGTTTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (21 bp):
CTACGTGATGAGGTAGCCACT
Found at i:292012 original size:21 final size:21
Alignment explanation
Indices: 291988--292099 Score: 109
Period size: 21 Copynumber: 5.3 Consensus size: 21
291978 CACCTGTCAT
* *
291988 CGTTCAAGAGGCGCCTC-CTAT
1 CGTTCAAGAGGCTCCTCTC-AA
*
292009 CGTTCAAGAGGATCCTCTCAA
1 CGTTCAAGAGGCTCCTCTCAA
*
292030 CGTTCAAGAGGATCCTCTCAA
1 CGTTCAAGAGGCTCCTCTCAA
* * *
292051 CGTTCAAGAGGCCCCTCCCAC
1 CGTTCAAGAGGCTCCTCTCAA
* * * *
292072 CATTCAAGAGGCCCCTGTCAT
1 CGTTCAAGAGGCTCCTCTCAA
292093 CGTTCAA
1 CGTTCAA
292100 TGGGTCCCTC
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
21 77 0.99
22 1 0.01
ACGTcount: A:0.24, C:0.34, G:0.20, T:0.22
Consensus pattern (21 bp):
CGTTCAAGAGGCTCCTCTCAA
Found at i:292078 original size:42 final size:42
Alignment explanation
Indices: 291988--292123 Score: 125
Period size: 42 Copynumber: 3.2 Consensus size: 42
291978 CACCTGTCAT
* * * *
291988 CGTTCAAGAGG-CGCCTC-CTATCGTTCAAGAGGATCCTCTCAA
1 CGTTCAAGAGGAC-CCTCTC-AACGTTCAAGAGGACCCTCCCAC
* *
292030 CGTTCAAGAGGATCCTCTCAACGTTCAAGAGGCCCCTCCCAC
1 CGTTCAAGAGGACCCTCTCAACGTTCAAGAGGACCCTCCCAC
* * * * *
292072 CATTCAAGAGGCCCCTGTCATCGTTCAATG-GGTCCCTCCCAC
1 CGTTCAAGAGGACCCTCTCAACGTTCAA-GAGGACCCTCCCAC
292114 CGTTCAAGAG
1 CGTTCAAGAG
292124 CTCGATTCAT
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
42 76 0.97
43 2 0.03
ACGTcount: A:0.23, C:0.35, G:0.21, T:0.22
Consensus pattern (42 bp):
CGTTCAAGAGGACCCTCTCAACGTTCAAGAGGACCCTCCCAC
Found at i:292118 original size:63 final size:63
Alignment explanation
Indices: 291988--292123 Score: 150
Period size: 63 Copynumber: 2.2 Consensus size: 63
291978 CACCTGTCAT
* * * * * *
291988 CGTTCAAGAGGCGCCTCCTATCGTTCAAGAGGATCCTCTCAACGTTCAAGAGGATCCTCTCAA
1 CGTTCAAGAGGCCCCTCCCACCATTCAAGAGGACCCTCTCAACGTTCAAGAGGATCCTCCCAA
* * * *
292051 CGTTCAAGAGGCCCCTCCCACCATTCAAGAGGCCCCTGTCATCGTTCAATG-GG-TCCCTCCCAC
1 CGTTCAAGAGGCCCCTCCCACCATTCAAGAGGACCCTCTCAACGTTCAA-GAGGAT-CCTCCCAA
292114 CGTTCAAGAG
1 CGTTCAAGAG
292124 CTCGATTCAT
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
62 1 0.02
63 59 0.97
64 1 0.02
ACGTcount: A:0.23, C:0.35, G:0.21, T:0.22
Consensus pattern (63 bp):
CGTTCAAGAGGCCCCTCCCACCATTCAAGAGGACCCTCTCAACGTTCAAGAGGATCCTCCCAA
Found at i:300647 original size:65 final size:65
Alignment explanation
Indices: 300511--300686 Score: 248
Period size: 66 Copynumber: 2.6 Consensus size: 65
300501 TGGGGTACAC
300511 TTTTTTTGCTTGTTTAATTGAATTT-TACATTGAAAGTTGATTTGTTTAATTGATGAGGAAATAA
1 TTTTTTTGCTTGTTTAATTG-ATTTGT--A---AAAGTTGATTTGTTTAATTGATGAGGAAATAA
300575 GAATTA
60 GAATTA
* *
300581 -TTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTTGATGTGTAAATAAGAATT
1 TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAA-TTGATGAGGAAATAAGAATT
300645 A
65 A
*
300646 TTTTTTTGCTTGTTTAGTTGATTTGTAAAAGTTGATTTGTT
1 TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTT
300687 GTTTTAAATT
Statistics
Matches: 100, Mismatches: 3, Indels: 10
0.88 0.03 0.09
Matches are distributed among these distances:
64 17 0.17
65 19 0.19
66 39 0.39
67 1 0.01
68 4 0.04
69 20 0.20
ACGTcount: A:0.27, C:0.02, G:0.18, T:0.53
Consensus pattern (65 bp):
TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTA
Found at i:301037 original size:18 final size:18
Alignment explanation
Indices: 301014--301049 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
301004 AAGCCGGTTG
301014 TGATTGAGATTTTGATTT
1 TGATTGAGATTTTGATTT
*
301032 TGATTGCGATTTTGATTT
1 TGATTGAGATTTTGATTT
301050 CCTTTTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.03, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGAGATTTTGATTT
Found at i:301402 original size:20 final size:20
Alignment explanation
Indices: 301373--301514 Score: 121
Period size: 20 Copynumber: 7.0 Consensus size: 20
301363 GTGTAGCAAA
* *
301373 ACTTTTGTGTTGCGAGTTTG
1 ACTTCTGTGTTGCGAATTTG
*
301393 ACTTCAGTGTTGCGAATTTG
1 ACTTCTGTGTTGCGAATTTG
*
301413 ACTATC-GCGTTGCGAATTTG
1 ACT-TCTGTGTTGCGAATTTG
*
301433 ACGTCTGTGTTGCGAATTTG
1 ACTTCTGTGTTGCGAATTTG
* *
301453 ACTTCTGTATTGCG-ATTTAT
1 ACTTCTGTGTTGCGAATTT-G
*
301473 ATATTC-GTGTTGCGAATTTGG
1 A-CTTCTGTGTTGCGAATTT-G
**
301494 A-AACTGTGTTGCGAAATTTG
1 ACTTCTGTGTTGCG-AATTTG
301514 A
1 A
301515 GATCGCGTTA
Statistics
Matches: 100, Mismatches: 15, Indels: 14
0.78 0.12 0.11
Matches are distributed among these distances:
19 7 0.07
20 78 0.78
21 15 0.15
ACGTcount: A:0.20, C:0.13, G:0.25, T:0.42
Consensus pattern (20 bp):
ACTTCTGTGTTGCGAATTTG
Found at i:301485 original size:60 final size:60
Alignment explanation
Indices: 301378--301514 Score: 154
Period size: 60 Copynumber: 2.3 Consensus size: 60
301368 GCAAAACTTT
* * * **
301378 TGTGTTGCGAGTTTGACTTCAGTGTTGCGAATTTGACTATCGCGTTGCGAATTT-GACGTC
1 TGTGTTGCGAATTTGACTTCAGTATTGCGAATTTGAATATCGCGTTGCGAATTTGGA-AAC
* *
301438 TGTGTTGCGAATTTGACTTCTGTATTGCG-ATTT-ATATATTCGTGTTGCGAATTTGGAAAC
1 TGTGTTGCGAATTTGACTTCAGTATTGCGAATTTGA-ATA-TCGCGTTGCGAATTTGGAAAC
301498 TGTGTTGCGAAATTTGA
1 TGTGTTGCG-AATTTGA
301515 GATCGCGTTA
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
58 1 0.02
59 6 0.09
60 50 0.76
61 9 0.14
ACGTcount: A:0.20, C:0.13, G:0.26, T:0.41
Consensus pattern (60 bp):
TGTGTTGCGAATTTGACTTCAGTATTGCGAATTTGAATATCGCGTTGCGAATTTGGAAAC
Found at i:303402 original size:17 final size:17
Alignment explanation
Indices: 303380--303417 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
303370 AGTTCAATAA
303380 TTTCAGAAACTTCACCC
1 TTTCAGAAACTTCACCC
303397 TTTCAGAAACTTCACCC
1 TTTCAGAAACTTCACCC
303414 TTTC
1 TTTC
303418 TTACCATACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.34, G:0.05, T:0.34
Consensus pattern (17 bp):
TTTCAGAAACTTCACCC
Found at i:304687 original size:19 final size:19
Alignment explanation
Indices: 304654--304690 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
304644 ATGACCAACA
*
304654 AAATCGCAATACGATCTCT
1 AAATCGCAACACGATCTCT
*
304673 AAATCGCAACGCGATCTC
1 AAATCGCAACACGATCTC
304691 CATTATCGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.30, G:0.14, T:0.22
Consensus pattern (19 bp):
AAATCGCAACACGATCTCT
Found at i:304801 original size:20 final size:20
Alignment explanation
Indices: 304776--304828 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
304766 GATTTTAGAT
*
304776 AATCGCAATGCGAATATGTA
1 AATCGCAATGCGAATATATA
304796 AATCGCAATGCGAATATATA
1 AATCGCAATGCGAATATATA
*
304816 AATCGCAACGCGA
1 AATCGCAATGCGA
304829 TAACACGTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.21
Consensus pattern (20 bp):
AATCGCAATGCGAATATATA
Found at i:304863 original size:20 final size:20
Alignment explanation
Indices: 304838--304984 Score: 215
Period size: 20 Copynumber: 7.3 Consensus size: 20
304828 ATAACACGTG
304838 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
304858 ATCGCAACGCGATTCGGACT
1 ATCGCAACGCGATTCTGACT
304878 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* *
304898 ATCGCAACGAGATTCTAACT
1 ATCGCAACGCGATTCTGACT
**
304918 ATCGCAACGCGATAAT-ACGT
1 ATCGCAACGCGATTCTGAC-T
304938 GATCGCAACGCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
304959 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
304979 AACGCA
1 ATCGCA
304985 TCACTGAATT
Statistics
Matches: 114, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
19 2 0.02
20 95 0.83
21 15 0.13
22 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:305856 original size:24 final size:24
Alignment explanation
Indices: 305805--305858 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
305795 GTATTCAAAA
*
305805 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
305829 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
305853 TTTGAT
1 TTTGAT
305859 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:306077 original size:14 final size:14
Alignment explanation
Indices: 306048--306084 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
306038 AGAAAAAGAA
306048 GAAGAAGAAATCCCC
1 GAAGAA-AAATCCCC
*
306063 GAAGAAAAGTCCCC
1 GAAGAAAAATCCCC
306077 GAAGAAAA
1 GAAGAAAA
306085 TGCCACGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.51, C:0.22, G:0.22, T:0.05
Consensus pattern (14 bp):
GAAGAAAAATCCCC
Found at i:308136 original size:12 final size:12
Alignment explanation
Indices: 308119--308149 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
308109 CAAGCAAAAG
308119 GCAATCAAAATC
1 GCAATCAAAATC
308131 GCAATCAAAATC
1 GCAATCAAAATC
308143 GCAATCA
1 GCAATCA
308150 CAACCGGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.48, C:0.26, G:0.10, T:0.16
Consensus pattern (12 bp):
GCAATCAAAATC
Found at i:308352 original size:20 final size:20
Alignment explanation
Indices: 308327--308581 Score: 118
Period size: 20 Copynumber: 13.7 Consensus size: 20
308317 CACATTCATT
*
308327 TGACTATTGCAACGTGAATA
1 TGACTATCGCAACGTGAATA
*
308347 TGACTATCGCAACGCGAATA
1 TGACTATCGCAACGTGAATA
* * *
308367 TGACTATTGCAACATGAATT
1 TGACTATCGCAACGTGAATA
* *
308387 TGAATATCGCAACG-GGATA
1 TGACTATCGCAACGTGAATA
* * *
308406 --A-T-T-GCAATGCGAAAA
1 TGACTATCGCAACGTGAATA
*
308421 TGACTATCGCAACG-G--GA
1 TGACTATCGCAACGTGAATA
* * *
308438 T-A--ATCGCAATGCGAAAA
1 TGACTATCGCAACGTGAATA
* * *
308455 TGACTATCGTAACGCGAATT
1 TGACTATCGCAACGTGAATA
* *
308475 TAACTATCGCAACGTGAATT
1 TGACTATCGCAACGTGAATA
*
308495 TGACTATCGTAA--T---TA
1 TGACTATCGCAACGTGAATA
**
308510 -GA-TAATCGCAACACGAA-A
1 TGACT-ATCGCAACGTGAATA
* *
308528 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGTGAATA
* * *
308548 TGATTATCGCAACGGGAATT
1 TGACTATCGCAACGTGAATA
308568 TGACTATCGCAACG
1 TGACTATCGCAACG
308582 AGGAAATCGC
Statistics
Matches: 179, Mismatches: 35, Indels: 42
0.70 0.14 0.16
Matches are distributed among these distances:
13 1 0.01
14 21 0.12
15 6 0.03
16 2 0.01
17 6 0.03
18 4 0.02
19 19 0.11
20 120 0.67
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (20 bp):
TGACTATCGCAACGTGAATA
Found at i:308429 original size:34 final size:34
Alignment explanation
Indices: 308391--308468 Score: 138
Period size: 34 Copynumber: 2.3 Consensus size: 34
308381 TGAATTTGAA
*
308391 TATCGCAACGGGATAATTGCAATGCGAAAATGAC
1 TATCGCAACGGGATAATCGCAATGCGAAAATGAC
308425 TATCGCAACGGGATAATCGCAATGCGAAAATGAC
1 TATCGCAACGGGATAATCGCAATGCGAAAATGAC
*
308459 TATCGTAACG
1 TATCGCAACG
308469 CGAATTTAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (34 bp):
TATCGCAACGGGATAATCGCAATGCGAAAATGAC
Found at i:308499 original size:40 final size:38
Alignment explanation
Indices: 308335--308581 Score: 124
Period size: 34 Copynumber: 6.7 Consensus size: 38
308325 TTTGACTATT
* * * *
308335 GCAACGTGAATATGACTATCGCAACGCGAATATGACTATT
1 GCAACGCGAATTTGACTATCGCAACGCGAAT-TTA-TATC
** * * *
308375 GCAACATGAATTTGAATATCGCAACG-GGA--TA-ATT
1 GCAACGCGAATTTGACTATCGCAACGCGAATTTATATC
* ** *
308409 GCAATGCGAAAATGACTATCGCAACG-GGA--TA-ATC
1 GCAACGCGAATTTGACTATCGCAACGCGAATTTATATC
* ** *
308443 GCAATGCGAAAATGACTATCGTAACGCGAATTTAACTATC
1 GCAACGCGAATTTGACTATCGCAACGCGAATTT-A-TATC
* * ***
308483 GCAACGTGAATTTGACTATCGTAATTAG-A--TA-ATC
1 GCAACGCGAATTTGACTATCGCAACGCGAATTTATATC
* *
308517 GCAACACGAA-ATGACTATCGCAACGCGAATTTGATTATC
1 GCAACGCGAATTTGACTATCGCAACGCGAATTT-A-TATC
*
308556 GCAACGGGAATTTGACTATCGCAACG
1 GCAACGCGAATTTGACTATCGCAACG
308582 AGGAAATCGC
Statistics
Matches: 163, Mismatches: 31, Indels: 26
0.74 0.14 0.12
Matches are distributed among these distances:
33 12 0.07
34 67 0.41
35 2 0.01
36 3 0.02
37 3 0.02
38 1 0.01
39 14 0.09
40 61 0.37
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.24
Consensus pattern (38 bp):
GCAACGCGAATTTGACTATCGCAACGCGAATTTATATC
Found at i:308590 original size:73 final size:73
Alignment explanation
Indices: 308421--308625 Score: 236
Period size: 73 Copynumber: 2.8 Consensus size: 73
308411 AATGCGAAAA
* * * *
308421 TGACTATCGCAACG-GGATAATCGCAATGCGAAAATGACTATCGTAACGCGAATTTAACTATCGC
1 TGACTATCGCAACGAGGATAATCGCAA-ACG-AAATGACTATCGCAACGCGAATTTGATTATCGC
*
308485 AACGTGAATT
64 AACGGGAATT
* **
308495 TGACTATCGTAATTA-GATAATCGCAACACGAAATGACTATCGCAACGCGAATTTGATTATCGCA
1 TGACTATCGCAACGAGGATAATCGCAA-ACGAAATGACTATCGCAACGCGAATTTGATTATCGCA
308559 ACGGGAATT
65 ACGGGAATT
* * * *
308568 TGACTATCGCAACGAGGA-AATCGCAAAGTGTATTAGACTATCGCAACGCGAATATGAT
1 TGACTATCGCAACGAGGATAATCGCAAA-CGAAAT-GACTATCGCAACGCGAATTTGAT
308626 GTATATTGAA
Statistics
Matches: 111, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
72 1 0.01
73 62 0.56
74 48 0.43
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (73 bp):
TGACTATCGCAACGAGGATAATCGCAAACGAAATGACTATCGCAACGCGAATTTGATTATCGCAA
CGGGAATT
Found at i:308766 original size:30 final size:30
Alignment explanation
Indices: 308731--308796 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
308721 TTAAACAAGC
*
308731 ACAAATAATAATTATTTACACACCAATTAA
1 ACAAATAAGAATTATTTACACACCAATTAA
*
308761 ACAAATAAGAATTATTTACACATCAATTAA
1 ACAAATAAGAATTATTTACACACCAATTAA
308791 ACAAAT
1 ACAAAT
308797 CAACTCTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.55, C:0.15, G:0.02, T:0.29
Consensus pattern (30 bp):
ACAAATAAGAATTATTTACACACCAATTAA
Found at i:310222 original size:21 final size:21
Alignment explanation
Indices: 310175--310295 Score: 104
Period size: 21 Copynumber: 5.8 Consensus size: 21
310165 TAGAATGTTG
* *
310175 GGAGGGACCTCTTCAACGAT-
1 GGAGGGGCCTCTTGAACGATA
* *
310195 GACAGGGGCCTCTTGAAC-AGTG
1 G-GAGGGGCCTCTTGAACGA-TA
* **
310217 GGAGGGGACTCTTGAGGGAT-
1 GGAGGGGCCTCTTGAACGATA
*
310237 GATAGGGGCCTCTTGAACGATA
1 G-GAGGGGCCTCTTGAACGATA
*
310259 GGAGAGGCCTCTTGAACGATA
1 GGAGGGGCCTCTTGAACGATA
*
310280 GGAGAGGCCTCTTGAA
1 GGAGGGGCCTCTTGAA
310296 TGATGACAGG
Statistics
Matches: 82, Mismatches: 13, Indels: 11
0.77 0.12 0.10
Matches are distributed among these distances:
20 3 0.04
21 76 0.93
22 3 0.04
ACGTcount: A:0.25, C:0.19, G:0.36, T:0.20
Consensus pattern (21 bp):
GGAGGGGCCTCTTGAACGATA
Found at i:310888 original size:20 final size:20
Alignment explanation
Indices: 310777--310898 Score: 94
Period size: 20 Copynumber: 6.4 Consensus size: 20
310767 AGAAGAATAG
* *
310777 TCGCAACACGAAAATGATTA
1 TCGCAACGCGAAAATGACTA
* **
310797 TCGCAACGTGAATTTGACTA
1 TCGCAACGCGAAAATGACTA
* *
310817 TCGTAACG-G--GAT-A--A
1 TCGCAACGCGAAAATGACTA
* **
310831 TCGCAATGCGAAAACAACTA
1 TCGCAACGCGAAAATGACTA
310851 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
**
310871 TCGCAACGCGAATTTGACTA
1 TCGCAACGCGAAAATGACTA
310891 TCGCAACG
1 TCGCAACG
310899 GGATAACCAC
Statistics
Matches: 79, Mismatches: 17, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
14 7 0.09
15 1 0.01
16 1 0.01
17 2 0.03
18 1 0.01
19 1 0.01
20 66 0.84
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:310899 original size:74 final size:74
Alignment explanation
Indices: 310777--310936 Score: 239
Period size: 74 Copynumber: 2.2 Consensus size: 74
310767 AGAAGAATAG
* * * * * *
310777 TCGCAACACGAAAATGATTATCGCAACGTGAATTTGACTATCGTAACGGGATAATCGCAATGCGA
1 TCGCAACGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAACCACAATGCGA
310842 AAACAACTA
66 AAACAACTA
310851 TCGCAACGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAACCACAATGCGA
1 TCGCAACGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAACCACAATGCGA
**
310916 AAATGACTA
66 AAACAACTA
*
310925 TCGCAATGCGAA
1 TCGCAACGCGAA
310937 TTTAGTTTCG
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
74 77 1.00
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (74 bp):
TCGCAACGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAACCACAATGCGA
AAACAACTA
Found at i:310990 original size:20 final size:19
Alignment explanation
Indices: 310942--310982 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
310932 GCGAATTTAG
*
310942 TTTCGCGTTGCGATAGTCA
1 TTTCGCGTTGCGATAATCA
*
310961 TTTCACGTTGCGATAATCA
1 TTTCGCGTTGCGATAATCA
310980 TTT
1 TTT
310983 TCGTGTTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.41
Consensus pattern (19 bp):
TTTCGCGTTGCGATAATCA
Found at i:313037 original size:20 final size:20
Alignment explanation
Indices: 313014--313070 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
313004 TCTGAAACTT
313014 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
313034 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** *
313054 ATTATCGCAACGCGAAA
1 AAAATCGCAACACGAAA
313071 TGGCTATCGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.51, C:0.21, G:0.16, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:313078 original size:19 final size:19
Alignment explanation
Indices: 313017--313088 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 19
313007 GAAACTTAAA
* **
313017 ATCGCAACACGAAAATGAAA
1 ATCGCAACGCG-AAATGACT
* *
313037 ATCGCAACACGAAAATGATT
1 ATCGCAACGCG-AAATGACT
*
313057 ATCGCAACGCGAAATGGCT
1 ATCGCAACGCGAAATGACT
313076 ATCGCAACGCGAA
1 ATCGCAACGCGAA
313089 TTTTGTCGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
19 19 0.40
20 28 0.60
ACGTcount: A:0.43, C:0.24, G:0.19, T:0.14
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:313460 original size:22 final size:22
Alignment explanation
Indices: 313430--313509 Score: 115
Period size: 22 Copynumber: 3.6 Consensus size: 22
313420 GATGGAGATA
313430 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
* * *
313452 GACGAATTTCGTCGGAAATGGG
1 GACGGATTTCGCCGGAGATGGG
*
313474 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
313496 GACGGATGTCGCCG
1 GACGGATTTCGCCG
313510 TAGAGAGTGA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.20, C:0.17, G:0.42, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:313697 original size:20 final size:20
Alignment explanation
Indices: 313672--313774 Score: 73
Period size: 20 Copynumber: 5.1 Consensus size: 20
313662 TTATCACAAC
*
313672 GCGATAACCAGAATCTCGTT
1 GCGATAACCAGAATCGCGTT
**
313692 GCGATAGTCAGAATCGCGTT
1 GCGATAACCAGAATCGCGTT
* * ** *
313712 GCGATCACGTATTATCGTGTT
1 GCGATAAC-CAGAATCGCGTT
*
313733 GCGATAGTCC-GAATCGCGTT
1 GCGATA-ACCAGAATCGCGTT
***
313753 GCGATAGTTAGAATCGCGTT
1 GCGATAACCAGAATCGCGTT
313773 GC
1 GC
313775 TATCACGTGT
Statistics
Matches: 61, Mismatches: 19, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
20 47 0.77
21 13 0.21
22 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (20 bp):
GCGATAACCAGAATCGCGTT
Found at i:313737 original size:61 final size:61
Alignment explanation
Indices: 313672--313798 Score: 175
Period size: 61 Copynumber: 2.1 Consensus size: 61
313662 TTATCACAAC
* * *
313672 GCGATA-ACCAGAATCTCGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCGTGTT
1 GCGATAGACC-GAATCGCGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATAGCGTT
* * * *
313733 GCGATAGTCCGAATCGCGTTGCGATAGTTAGAATCGCGTTGCTATCACGTGTTATAGCGTT
1 GCGATAGACCGAATCGCGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATAGCGTT
313794 GCGAT
1 GCGAT
313799 TTACATATTC
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
61 56 0.97
62 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (61 bp):
GCGATAGACCGAATCGCGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATAGCGTT
Found at i:313817 original size:20 final size:20
Alignment explanation
Indices: 313792--313859 Score: 127
Period size: 20 Copynumber: 3.4 Consensus size: 20
313782 TGTTATAGCG
313792 TTGCGATTTACATATTCGCA
1 TTGCGATTTACATATTCGCA
313812 TTGCGATTTACATATTCGCA
1 TTGCGATTTACATATTCGCA
313832 TTGCGATTTACATATTCGCA
1 TTGCGATTTACATATTCGCA
*
313852 TTGTGATT
1 TTGCGATT
313860 ATCTAAAATC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.43
Consensus pattern (20 bp):
TTGCGATTTACATATTCGCA
Found at i:313932 original size:19 final size:19
Alignment explanation
Indices: 313908--313960 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
313898 GATGGTCTAA
313908 ATCGCATTGCGATTTAGAG
1 ATCGCATTGCGATTTAGAG
313927 ATCGCATTGCGATTTAGAG
1 ATCGCATTGCGATTTAGAG
*
313946 ATCGAATTGCGATTT
1 ATCGCATTGCGATTT
313961 TGTTGGTCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (19 bp):
ATCGCATTGCGATTTAGAG
Found at i:316314 original size:182 final size:181
Alignment explanation
Indices: 316059--316600 Score: 847
Period size: 182 Copynumber: 3.0 Consensus size: 181
316049 GTCTATACTT
316059 TATCGACACTTTGTGAATTTAAAAGAGAAGTC-GTTTTAGCGCCTATAAAGTGTCGATACTTTAT
1 TATCGACACTTTGTGAATTTAAAAGAGAAG-CAGTTTTAGCGCCTATAAAGTGTCGATACTTTAT
* * * * * * * * *
316123 AACAATGTATTGATCCACAACAATATAATAGGTAAAAATATGACAAAACTGGTCTCTAAAGGACA
65 AAAAATGTATCGATCCATAACGATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACA
*
316188 AAACCGATATAGAGCGACTGGATATATTGAAAGTGTCGATACTTTAATATAAG
130 AAACCGGTA-AGAGCGACTGGATATATTGAAAGTGTCGATACTTTAATATAAG
*
316241 TATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGCCGATACTTTATA
1 TATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTATA
316306 AAAATGTATCGATCCATAACGATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAA
66 AAAATGTATCGATCCATAACGATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAA
* *
316371 AACCGGTAA-AGCGTTTCTGGATATATTAAAAGTGTCGATACTTTAATATAAG
131 AACCGGTAAGAGCG--ACTGGATATATTGAAAGTGTCGATACTTTAATATAAG
*
316423 TATCGACACTTCGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTATA
1 TATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTATA
* *
316488 AAAATATATCGATCCATAAGGATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAA
66 AAAATGTATCGATCCATAACGATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAA
* *
316553 AACCGGTAA-AGCGCTACCGAATATATTGAAAGTGTCGATACTTTAATA
131 AACCGGTAAGAGCG--ACTGGATATATTGAAAGTGTCGATACTTTAATA
316601 AGTATGCGTA
Statistics
Matches: 335, Mismatches: 22, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
180 4 0.01
181 2 0.01
182 329 0.98
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (181 bp):
TATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTATA
AAAATGTATCGATCCATAACGATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAA
AACCGGTAAGAGCGACTGGATATATTGAAAGTGTCGATACTTTAATATAAG
Found at i:319175 original size:3 final size:3
Alignment explanation
Indices: 319160--319218 Score: 73
Period size: 3 Copynumber: 19.7 Consensus size: 3
319150 ACTTGTTTGG
* * *
319160 ATC ATC ATA ATC ATC ATC ATC ATC ATC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* *
319208 TTC ATC TTC AT
1 ATC ATC ATC AT
319219 TGACCTCTTG
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.29, C:0.31, G:0.02, T:0.39
Consensus pattern (3 bp):
ATC
Found at i:321053 original size:199 final size:201
Alignment explanation
Indices: 320727--321243 Score: 822
Period size: 200 Copynumber: 2.6 Consensus size: 201
320717 ACTTTATGCT
* * * * **
320727 GACCTATTTTCTCATAAAACCGGTATATTTATACCGATTATATTACAAAATTATATATTACATTA
1 GACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTACATTAAAAAATTACCTATTACATTA
*
320792 TAATTATGGGTTTTGATATTTTTGGGATCGACACTTTTTAAAAATGTATCGACACTTTATGGGTG
66 TAATTATGGGTTTTGATGTTTTTGGGATCGACACTTTTTAAAAATGTATCGACACTTTATGGGTG
* *
320857 CAT-CATTTTCGGCATTCCTTTTGGACAAAAAGTATCGACACAAAATACACAAGTATCGATACAT
131 CATCCATTTTCGGCATTCCTTCTGGACAAAAAGTATCAACACAAAATACACAAGTATCGATACAT
320921 TTTCTA
196 TTTCTA
* * *
320927 GACCTATTCTCTCATAAAACTGGTATATTTATACCGGTTACATT-GAAATTTACCTATTACATTA
1 GACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTACATTAAAAAATTACCTATTACATTA
** * *
320991 TAATTATCTGTTTCGATGTTTTTGGGATTGACACTTTTTAAAAATGTATCGACACTTTATGGGTG
66 TAATTATGGGTTTTGATGTTTTTGGGATCGACACTTTTTAAAAATGTATCGACACTTTATGGGTG
* *
321056 CATCCTTTTTGGGCATTCCTTCTGGACAAAAAGTATCAACACAAAATACACAAGTATCGATACAT
131 CATCCATTTTCGGCATTCCTTCTGGACAAAAAGTATCAACACAAAATACACAAGTATCGATACAT
321121 TTTCTA
196 TTTCTA
321127 GACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTACATTAAAAAATTACCTATTACATTA
1 GACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTACATTAAAAAATTACCTATTACATTA
* * * *
321192 TAATTATGGGTTTTGATGTTTCTAGGATCGATACTTTTTATAAATGTATCGA
66 TAATTATGGGTTTTGATGTTTTTGGGATCGACACTTTTTAAAAATGTATCGA
321244 TATTTATATC
Statistics
Matches: 287, Mismatches: 28, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
199 79 0.28
200 146 0.51
201 62 0.22
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.38
Consensus pattern (201 bp):
GACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTACATTAAAAAATTACCTATTACATTA
TAATTATGGGTTTTGATGTTTTTGGGATCGACACTTTTTAAAAATGTATCGACACTTTATGGGTG
CATCCATTTTCGGCATTCCTTCTGGACAAAAAGTATCAACACAAAATACACAAGTATCGATACAT
TTTCTA
Found at i:323313 original size:195 final size:200
Alignment explanation
Indices: 322844--323371 Score: 586
Period size: 201 Copynumber: 2.7 Consensus size: 200
322834 TGTCCAGAAT
* * *
322844 ATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCAATACCATCGAAATTGATAATTATAATG
1 ATAAAGTGTCGATACATTTA-TAAAAGTATCGATCCCAAAAACATCGAAACTGATAATTATAATG
* * * *
322909 TAATAAGTAAATTTACAATGTAACTGGTATAAATATACCAGTTTTATAAGAAAATAGGTCAACAT
65 TAATAGGTAAATTTACAATGTAACCGATAGAAATATACCAGTTTTATAAGAAAATAGGTCAACAT
* * * *
322974 AAAATATCGACACCATTTAAATTTGTGTCGACACTTTTTTGTCCATAATGAATGTCAAATGGGGT
130 AAAATATCGACACCATTTAAATTTGTGTCGACACTTTTTTGTCCAGAATGAATGCCAAACGAGGT
323039 GAACGC
195 GAACGC
* * *
323045 ATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCACAAACATCGAAACCGATAATTACAATG
1 ATAAAGTGTCGATACATTTA-TAAAAGTATCGATCCCAAAAACATCGAAACTGATAATTATAATG
* * * * *
323110 TGATAGGTAAATTTACAATGTACCCGATAGAAATATACCGGTTTTATGAGAAAA-ATGTCTAA-A
65 TAATAGGTAAATTTACAATGTAACCGATAGAAATATACCAGTTTTATAAGAAAATAGGTC-AACA
** * * * * *
323173 TAATGTATCGACA-CTTTTAAGTTT-TGTTGATAC-TTTTT-TCCAGAATGAATGCCCAACGAGG
129 TAAAATATCGACACCATTTAAATTTGTGTCGACACTTTTTTGTCCAGAATGAATGCCAAACGAGG
* *
323234 TGCATGC
194 TGAACGC
* * * *
323241 ATAAAGTTTCGATACATTTA-AAATTGTATCGATCCGAAAAATATCGAAACTGATAATTATAATG
1 ATAAAGTGTCGATACATTTATAAA-AGTATCGATCCCAAAAACATCGAAACTGATAATTATAATG
** * * * * * * *
323305 TAATAGGTAAATTTGTAATGTTACCGGTATAAATATATC-GATTTACTTAGAAAATAGGTCAATA
65 TAATAGGTAAATTTACAATGTAACCGATAGAAATATACCAGTTTTA-TAAGAAAATAGGTCAACA
323369 TAA
129 TAA
323372 GCGCTACCTA
Statistics
Matches: 276, Mismatches: 46, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
194 8 0.03
195 74 0.27
196 50 0.18
197 5 0.02
198 7 0.03
199 9 0.03
200 16 0.06
201 107 0.39
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.32
Consensus pattern (200 bp):
ATAAAGTGTCGATACATTTATAAAAGTATCGATCCCAAAAACATCGAAACTGATAATTATAATGT
AATAGGTAAATTTACAATGTAACCGATAGAAATATACCAGTTTTATAAGAAAATAGGTCAACATA
AAATATCGACACCATTTAAATTTGTGTCGACACTTTTTTGTCCAGAATGAATGCCAAACGAGGTG
AACGC
Found at i:323468 original size:87 final size:87
Alignment explanation
Indices: 323366--323619 Score: 420
Period size: 87 Copynumber: 2.9 Consensus size: 87
323356 AAATAGGTCA
*
323366 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTATACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
*
323431 CCGGTTAAATGCCTATTTTATT
66 CCGGTTAAATGCATATTTTATT
*
323453 ATATAAGCACTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
* *
323518 CCGATTAAATGCATTTTTTATT
66 CCGGTTAAATGCATATTTTATT
* * * *
323540 TTATAACCGCTATCTATTACATTATATAAGCACTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
323605 CCGGTTAAATG-ATAT
66 CCGGTTAAATGCATAT
323620 AACATAACCG
Statistics
Matches: 155, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
86 3 0.02
87 152 0.98
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
CCGGTTAAATGCATATTTTATT
Found at i:323500 original size:23 final size:23
Alignment explanation
Indices: 323450--323494 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
323440 TGCCTATTTT
*
323450 ATTATATAAGCACTACCTATTAC
1 ATTATATAAGCACTACCTAATAC
*
323473 ATTATATAAGCGCTACCTAATA
1 ATTATATAAGCACTACCTAATA
323495 TGTTATTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (23 bp):
ATTATATAAGCACTACCTAATAC
Found at i:324010 original size:20 final size:21
Alignment explanation
Indices: 323985--324030 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
323975 AGTGTCCAAC
*
323985 AATAACAAAATCGATAGAAA-
1 AATAACAAAACCGATAGAAAT
324005 AATAACAAAACCGATAGAAAT
1 AATAACAAAACCGATAGAAAT
324026 AATAA
1 AATAA
324031 TGTTTTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.65, C:0.11, G:0.09, T:0.15
Consensus pattern (21 bp):
AATAACAAAACCGATAGAAAT
Found at i:324311 original size:22 final size:24
Alignment explanation
Indices: 324267--324316 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
324257 TCACCTAACT
324267 ATTAAAAGTATAATATATCTTATC
1 ATTAAAAGTATAATATATCTTATC
324291 ATTAAGAA-TATAATAT-T-TTATC
1 ATTAA-AAGTATAATATATCTTATC
324313 ATTA
1 ATTA
324317 CATCTAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 9 0.36
23 1 0.04
24 13 0.52
25 2 0.08
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (24 bp):
ATTAAAAGTATAATATATCTTATC
Found at i:324702 original size:20 final size:21
Alignment explanation
Indices: 324663--324704 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
324653 GTGACACGTG
*
324663 TCATGTTTAGAATTTTTTTTA
1 TCATGTTTAGAATTTGTTTTA
324684 TCATGTTTAG-ATTTGTTTTA
1 TCATGTTTAGAATTTGTTTTA
324704 T
1 T
324705 TTTTTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.21, C:0.05, G:0.12, T:0.62
Consensus pattern (21 bp):
TCATGTTTAGAATTTGTTTTA
Found at i:330919 original size:21 final size:20
Alignment explanation
Indices: 330892--330990 Score: 81
Period size: 21 Copynumber: 4.8 Consensus size: 20
330882 AATCAGTTTC
330892 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
330913 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
330934 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
330954 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
330975 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
330991 ACACATAAAT
Statistics
Matches: 61, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
20 16 0.26
21 45 0.74
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:331006 original size:40 final size:40
Alignment explanation
Indices: 330957--331111 Score: 186
Period size: 40 Copynumber: 3.9 Consensus size: 40
330947 CGATTTTCCA
* ** *
330957 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
* * *
330997 AAATCGCAACGCGTATCCGTAAATCGCAACGTGTATC-CGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACACAT
* ** *
331037 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
331077 AAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
331112 TATTTAAAGC
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 62 0.65
41 33 0.34
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.18
Consensus pattern (40 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
Found at i:331019 original size:20 final size:20
Alignment explanation
Indices: 330957--331110 Score: 168
Period size: 20 Copynumber: 7.7 Consensus size: 20
330947 CGATTTTCCA
* ** *
330957 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
330977 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
330997 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
331017 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
331037 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
331057 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
331077 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
331098 AAATCGCAACGCG
1 AAATCGCAACGCG
331111 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.02
20 92 0.82
21 17 0.15
22 1 0.01
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:331532 original size:33 final size:33
Alignment explanation
Indices: 331493--331563 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
331483 TTCACTTAGA
*
331493 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
331526 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
331559 TTTCA
1 TTTCA
331564 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:331700 original size:41 final size:41
Alignment explanation
Indices: 331642--331719 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
331632 TTGCAGAAGA
* *
331642 GTCGCAACGAGATAAATGAAAATCGCAACGATAGAATGACT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
331683 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
331720 CGCAACGCAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.45, C:0.17, G:0.24, T:0.14
Consensus pattern (41 bp):
GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
Found at i:331716 original size:21 final size:21
Alignment explanation
Indices: 331643--331718 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
331633 TGCAGAAGAG
*
331643 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
* ***
331664 TCGCAACGATAG-AATGACTG
1 TCGCAACGAGAGAAATGAAAA
331684 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
331705 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
331719 TCGCAACGCA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.46, C:0.17, G:0.24, T:0.13
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGAAAA
Found at i:331722 original size:14 final size:14
Alignment explanation
Indices: 331703--331743 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 14
331693 GAGAAATGAA
331703 AATCGCAACGAGAG
1 AATCGCAACGAGAG
331717 AATCGCAACGCAGAGAG
1 AATCGCAA--C-GAGAG
331734 AATCGCAACG
1 AATCGCAACG
331744 CGAAACCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 9 0.38
15 1 0.04
16 1 0.04
17 13 0.54
ACGTcount: A:0.41, C:0.24, G:0.27, T:0.07
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:331734 original size:17 final size:17
Alignment explanation
Indices: 331712--331744 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
331702 AAATCGCAAC
331712 GAGAGAATCGCAACGCA
1 GAGAGAATCGCAACGCA
331729 GAGAGAATCGCAACGC
1 GAGAGAATCGCAACGC
331745 GAAACCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.39, C:0.24, G:0.30, T:0.06
Consensus pattern (17 bp):
GAGAGAATCGCAACGCA
Found at i:331777 original size:19 final size:19
Alignment explanation
Indices: 331755--331852 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
331745 GAAACCAAAA
*
331755 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
331774 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
331788 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
331807 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
**
331821 TCTAGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
331840 TCGCGTTGCGATT
1 TCGCGTTGCGATT
331853 CTCTCGTTGC
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 19 0.31
16 6 0.10
17 6 0.10
19 31 0.50
ACGTcount: A:0.11, C:0.22, G:0.21, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:331796 original size:14 final size:14
Alignment explanation
Indices: 331777--331866 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
331767 TTTCATTTCG
331777 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
331791 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
331810 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
331824 AGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
331843 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
331857 CGTTGCGATT
1 CGTTGCGATT
331867 TTCATTTCAA
Statistics
Matches: 60, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 29 0.48
16 6 0.10
17 6 0.10
19 19 0.32
ACGTcount: A:0.10, C:0.23, G:0.22, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:331802 original size:33 final size:33
Alignment explanation
Indices: 331760--331874 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
331750 CAAAATCGCA
331760 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
331793 TTGCGATTTTCATTTCGCGTTGCGATTCTCTAG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
331826 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
331859 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
331875 AACCAAAAGA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.10, C:0.23, G:0.20, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:333730 original size:93 final size:93
Alignment explanation
Indices: 333571--333853 Score: 550
Period size: 93 Copynumber: 3.1 Consensus size: 93
333561 TAGATTGCTT
*
333571 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
333636 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
333664 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
333729 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
333757 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
333822 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
333849 AGTAA
1 AGTAA
333854 TGCAATCCAT
Statistics
Matches: 189, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
92 6 0.03
93 183 0.97
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:333961 original size:33 final size:32
Alignment explanation
Indices: 333918--334010 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
333908 ACGAAACTTA
**
333918 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
333950 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
333983 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
334011 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:334010 original size:19 final size:19
Alignment explanation
Indices: 333901--334010 Score: 87
Period size: 19 Copynumber: 6.3 Consensus size: 19
333891 TAGTTTACTT
* *
333901 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
**
333921 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
333940 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
333954 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
333973 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
333987 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
334006 TCGCA
1 TCGCA
334011 TTGCGATTTT
Statistics
Matches: 72, Mismatches: 8, Indels: 21
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.26
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 29 0.40
20 12 0.17
ACGTcount: A:0.45, C:0.28, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:334028 original size:19 final size:19
Alignment explanation
Indices: 334006--334140 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
333996 GAAACCAAAA
*
334006 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
334025 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
334041 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
334058 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
334074 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
334091 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
334110 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
334130 TCGTGTTGCGA
1 TCGCGTTGCGA
334141 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:334047 original size:14 final size:14
Alignment explanation
Indices: 334028--334084 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
334018 TTTCATTTCG
334028 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
334042 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
334059 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
334075 CGTTGCGATT
1 CGTTGCGATT
334085 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:334053 original size:33 final size:33
Alignment explanation
Indices: 334011--334103 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
334001 CAAAATCGCA
*
334011 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
334044 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
334077 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
334104 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:336081 original size:14 final size:14
Alignment explanation
Indices: 336062--336097 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
336052 ATTGTTTAAT
336062 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
336076 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
336090 TGATTTGT
1 TGATTTGT
336098 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:336228 original size:19 final size:19
Alignment explanation
Indices: 336204--336301 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
336194 AAAATTGACT
336204 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
336223 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
336242 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
336256 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
336275 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
336295 ATCGCAA
1 ATCGCAA
336302 CGGAGAATCG
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:336282 original size:52 final size:52
Alignment explanation
Indices: 336204--336315 Score: 208
Period size: 52 Copynumber: 2.2 Consensus size: 52
336194 AAAATTGACT
336204 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACG-GAGA
336256 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGGAGA
336308 ATCGCAAT
1 ATCGCAAT
336316 ACGATTTTAA
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
52 41 0.69
53 18 0.31
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (52 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGGAGA
Found at i:336339 original size:19 final size:19
Alignment explanation
Indices: 336317--336478 Score: 174
Period size: 19 Copynumber: 9.3 Consensus size: 19
336307 AATCGCAATA
*
336317 CGATTTTAATTTCGCATTG
1 CGATTTTCATTTCGCATTG
*
336336 CGA--TTC-TCTCG--TTG
1 CGATTTTCATTTCGCATTG
336350 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTG
336369 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTG
*
336388 CGA--TTC-TCTCG--TTG
1 CGATTTTCATTTCGCATTG
336402 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTG
336421 CGATTTTCATTTCCGCATTG
1 CGATTTTCATTT-CGCATTG
336441 CGATTTTCA--T-G--TTG
1 CGATTTTCATTTCGCATTG
*
336455 GGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTG
336474 CGATT
1 CGATT
336479 CTCTCGTTGC
Statistics
Matches: 120, Mismatches: 7, Indels: 32
0.75 0.04 0.20
Matches are distributed among these distances:
14 23 0.19
16 16 0.13
17 14 0.12
18 1 0.01
19 50 0.42
20 16 0.13
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (19 bp):
CGATTTTCATTTCGCATTG
Found at i:336365 original size:52 final size:52
Alignment explanation
Indices: 336317--336478 Score: 272
Period size: 52 Copynumber: 3.1 Consensus size: 52
336307 AATCGCAATA
*
336317 CGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTG
336369 CGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTG
* *
336421 CGATTTTCATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTCATTTCGCATTG
1 CGATTTTCATTT-CGCATTGCGATTCTC-TCGTTGCGATTTTCATTTCGCATTG
336474 CGATT
1 CGATT
336479 CTCTCGTTGC
Statistics
Matches: 105, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
52 63 0.60
53 41 0.39
54 1 0.01
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (52 bp):
CGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTG
Found at i:336500 original size:33 final size:33
Alignment explanation
Indices: 336317--336492 Score: 153
Period size: 33 Copynumber: 5.2 Consensus size: 33
336307 AATCGCAATA
*
336317 CGATTTTAATTTCGCATTGCGATTCTCTCGTTG
1 CGATTTTCATTTCGCATTGCGATTCTCTCGTTG
*
336350 CGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTG
* * * * *
336388 CGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCATTG
1 CGATT-T-TCATTTCGCA-TTGCGATTCTCTCGTTG
*
336421 CGATTTTCATTTCCGCATTGCGATTTTCAT-GTTG
1 CGATTTTCATTT-CGCATTGCGATTCTC-TCGTTG
*
336455 GGATTTTCATTTCGCATTGCGATTCTCTCGTTG
1 CGATTTTCATTTCGCATTGCGATTCTCTCGTTG
336488 CGATT
1 CGATT
336493 GTAATTTCCG
Statistics
Matches: 113, Mismatches: 16, Indels: 28
0.72 0.10 0.18
Matches are distributed among these distances:
31 4 0.04
32 7 0.06
33 55 0.49
34 16 0.14
35 5 0.04
36 4 0.04
37 2 0.02
38 8 0.07
39 3 0.03
40 9 0.08
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
CGATTTTCATTTCGCATTGCGATTCTCTCGTTG
Found at i:339679 original size:20 final size:20
Alignment explanation
Indices: 339651--339877 Score: 255
Period size: 20 Copynumber: 11.5 Consensus size: 20
339641 AAATTTCAGT
* *
339651 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
339671 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
339691 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
339711 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
339731 GTTGCGATTTAC-GA-T-TC
1 GTTGCGATTTACGGATTCTC
*
339748 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
* *
339768 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
339788 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
339808 GTTGCGATATACGGATACAC
1 GTTGCGATTTACGGATTCTC
* *
339828 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* *
339848 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCTC
339868 GTTGCGATTT
1 GTTGCGATTT
339878 TCATATTCGC
Statistics
Matches: 187, Mismatches: 16, Indels: 8
0.89 0.08 0.04
Matches are distributed among these distances:
17 14 0.07
18 3 0.02
19 3 0.02
20 166 0.89
21 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCTC
Found at i:339779 original size:97 final size:99
Alignment explanation
Indices: 339651--339858 Score: 262
Period size: 97 Copynumber: 2.1 Consensus size: 99
339641 AAATTTCAGT
* * * * * *
339651 GTTGTGATTTACAGATTCTCGTTGCGATTTACGGATTA-TCGTTGCGATTTACAGATTCTCGTTG
1 GTTGCGATTTACAGATTATCGTTGCGATTTACGGA-TACGCGTTGCGATATACAGATACGCGTTG
* * *
339715 CGATTTACGGATTA-TCGTTGCGATTTAC-GAT-TC
65 CGATATACGGA-TACACGTTGCGATTTACGGATAGC
* *
339748 GTTGCGATTTACGGATTATCGTTGCGATTTACGGATACGCGTTGCGATATACGGATACGCGTTGC
1 GTTGCGATTTACAGATTATCGTTGCGATTTACGGATACGCGTTGCGATATACAGATACGCGTTGC
339813 GATATACGGATACACGTTGCGATTTACGGATACGC
66 GATATACGGATACACGTTGCGATTTACGGATA-GC
339848 GTTGCGATTTA
1 GTTGCGATTTA
339859 TGTGTTCGCG
Statistics
Matches: 95, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
96 4 0.04
97 76 0.80
98 3 0.03
100 12 0.13
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.36
Consensus pattern (99 bp):
GTTGCGATTTACAGATTATCGTTGCGATTTACGGATACGCGTTGCGATATACAGATACGCGTTGC
GATATACGGATACACGTTGCGATTTACGGATAGC
Found at i:339886 original size:20 final size:19
Alignment explanation
Indices: 339845--339898 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
339835 TTTACGGATA
* *
339845 CGCGTTGCGATTTATGTGTT
1 CGCGTTGCGATTT-TATATT
339865 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTT-ATATT
*
339885 CGCGTTACGATTTT
1 CGCGTTGCGATTTT
339899 GGAAAATCGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.13, C:0.19, G:0.24, T:0.44
Consensus pattern (19 bp):
CGCGTTGCGATTTTATATT
Found at i:341736 original size:24 final size:20
Alignment explanation
Indices: 341709--341766 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
341699 GCATAAGGAG
*
341709 TGCATCGATGCACATGTTAAGGGA
1 TGCATCGATGCAC-TG-T-A-GAA
*
341733 TGCATCGATACACTGTAGAA
1 TGCATCGATGCACTGTAGAA
341753 TGCATCGATGCACT
1 TGCATCGATGCACT
341767 TCAAGGGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 15 0.48
21 1 0.03
22 1 0.03
23 2 0.06
24 12 0.39
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (20 bp):
TGCATCGATGCACTGTAGAA
Found at i:343362 original size:23 final size:23
Alignment explanation
Indices: 343304--343366 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
343294 CATTTTATAT
* *
343304 GGCACTTCGGTGCAATTCTACGT
1 GGCACTTCGGTGCATTTCTACGC
*
343327 GGCACTACGGTGCATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
*
343350 GGCACTTCAGTGCATTT
1 GGCACTTCGGTGCATTT
343367 ATATGAGTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.17, C:0.27, G:0.25, T:0.30
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:345914 original size:14 final size:15
Alignment explanation
Indices: 345890--345920 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
345880 GTTTTCGTGG
345890 TGGGGGTTTGAAGTT
1 TGGGGGTTTGAAGTT
345905 TGGGGG-TTGAAGTT
1 TGGGGGTTTGAAGTT
345919 TG
1 TG
345921 TTTATAGGCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.13, C:0.00, G:0.48, T:0.39
Consensus pattern (15 bp):
TGGGGGTTTGAAGTT
Found at i:352513 original size:125 final size:125
Alignment explanation
Indices: 352291--352533 Score: 353
Period size: 125 Copynumber: 1.9 Consensus size: 125
352281 TACCCACTTT
* * * * *
352291 GGGGCACGACTGAATCCACATCATGTTGAGATGACAATATTCAGACCAAGGAGGCATGAAGAATG
1 GGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATACAGACCAAGAAGCCATGAAGAATG
*
352356 AGCCTTACAAATTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAATATAAGAAAATATC
66 AGCCTTACAAATTGAGGTGATGGGGCATTTTGAAGGCCCATACCAATATAAGAAAATATC
* * *
352416 GGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATACATACCAATAAGACCTTG-AGAAT
1 GGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATACAGACCAAGAAG-CCATGAAGAAT
* * * *
352480 GAGCCTTACAATTTGAGGTGTTGGGGCATTTTGAAGGCCCATTCCAGTATAAGA
65 GAGCCTTACAAATTGAGGTGATGGGGCATTTTGAAGGCCCATACCAATATAAGA
352534 TGATGTTGCG
Statistics
Matches: 104, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
125 101 0.97
126 3 0.03
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.23
Consensus pattern (125 bp):
GGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATACAGACCAAGAAGCCATGAAGAATG
AGCCTTACAAATTGAGGTGATGGGGCATTTTGAAGGCCCATACCAATATAAGAAAATATC
Found at i:353861 original size:36 final size:37
Alignment explanation
Indices: 353803--353897 Score: 95
Period size: 36 Copynumber: 2.6 Consensus size: 37
353793 GGAGATTGGG
* *
353803 GCAAAGTCAATCTTAAACCTTCACCAAAGAGTAGTGATA
1 GCAAA-TCCATCTTAAGCCTTCACCAAAGAGTAGTGA-A
* * * *
353842 -CAAA-CCATCTTAAGTCTTCATCGAAGGGTAGTGAA
1 GCAAATCCATCTTAAGCCTTCACCAAAGAGTAGTGAA
*
353877 GCAAATCCATTTTAAGCCTTC
1 GCAAATCCATCTTAAGCCTTC
353898 TTAGAAGAGT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
35 1 0.02
36 28 0.61
37 13 0.28
38 4 0.09
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (37 bp):
GCAAATCCATCTTAAGCCTTCACCAAAGAGTAGTGAA
Found at i:354368 original size:55 final size:55
Alignment explanation
Indices: 354119--354937 Score: 523
Period size: 55 Copynumber: 14.9 Consensus size: 55
354109 GTGAAGTAAA
** *
354119 TGAAGATT-TTCGAGTTCTATACTCCCTGAAGAAAGAATGAGCGAAC-CATT--T
1 TGAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACTCGTTAGT
* * * * * * * **
354170 TGAAAAAGA-CGTTCGAGTTCTATACTCCTTAAAGAAAAAAGGAGCGATCTCGTAAAA
1 TG---AAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACTCGTTAGT
* * * * * * * * *
354227 AGAAGA-CGTTCGAGTTCTATATTCCATGAAGAAAGAAGGAGCAAACTCATAAGA
1 TGAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACTCGTTAGT
* * * *
354281 AGAATA-TGTTCGAGTTCTATACTTCCTAAAGAAAGAGGGAGCGAACTCGTTAGT
1 TGAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACTCGTTAGT
* * * *
354335 TGAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGTGAACCCGTAAGA
1 TGAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACTCGTTAGT
* * *
354390 AGAAGA-TGTTAGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACTCGTTAGT
1 TGAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACTCGTTAGT
* * * * *
354444 TGAAGATTATTCGAATTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCATT-TT
1 TGAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACTCGTTAGT
* * * *
354498 TAGAAGAATATTCGAGTTCTATACTCTCTGAAGAAAGAGGGAGGGAAC-CTGTT--T
1 T-GAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACTC-GTTAGT
* * * * * * * * *
354552 TCAGAAGATTTTTTGAGTTCTATACTCCCTTAAAGAAAAATGGAGTGAACCCATTTA-C
1 T--GAAGATTGTTCGAGTTCTATACTCCC-TGAAGAAAGAGGGAGCGAACTC-GTTAGT
* * * * * *
354610 AGAAGAGTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTGGC
1 TGAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACTCGTTAGT
* * * * * * * * *
354665 AGATGATTATTCGAGTTCTATACTCCCTGAAAGAAAGAAGGAGTGAACCCATTTGC
1 TGAAGATTGTTCGAGTTCTATACTCCCTG-AAGAAAGAGGGAGCGAACTCGTTAGT
* * * * * * * *
354721 AGAAGAGTGTTCGAGTTCTTATACTCTCTGAAGAAATAGGGAG-AAGACACGATCGT
1 TGAAGATTGTTCGAGTTC-TATACTCCCTGAAGAAAGAGGGAGCGA-ACTCGTTAGT
* * * *
354777 TGAAGATTGTTCGAG-TCTTATGCTCTCTGAAAGAAATAGGGAGC-AGACACGATT-GT
1 TGAAGATTGTTCGAGTTC-TATACTCCCTG-AAGAAAGAGGGAGCGA-ACTCG-TTAGT
* * * * *
354833 TGAAGATTGTTCGAG-TCTTATGCTCTCTGAAGGAATAAAGAGCAG-GCA-T-GATT-GT
1 TGAAGATTGTTCGAGTTC-TATACTCCCTGAA-GAA-AGAG-GGAGCGAACTCG-TTAGT
** *
354888 TGAAGA-TGTTCGAGTTCTATACTCATTGAAGAAAGAGGGAACGAACTCGT
1 TGAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACTCGT
354938 CCCCAGAAGA
Statistics
Matches: 626, Mismatches: 112, Indels: 58
0.79 0.14 0.07
Matches are distributed among these distances:
51 4 0.01
52 5 0.01
53 5 0.01
54 201 0.32
55 230 0.37
56 159 0.25
57 19 0.03
58 3 0.00
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (55 bp):
TGAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACTCGTTAGT
Found at i:354405 original size:109 final size:108
Alignment explanation
Indices: 354119--354792 Score: 630
Period size: 109 Copynumber: 6.1 Consensus size: 108
354109 GTGAAGTAAA
* ** * *
354119 TGAAGATT-TTCGAGTTCTATACTCCCTGAAGAAAGAATGAGCGAA-CCATTTTGAAAAAGACGT
1 TGAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAAGGAGCGAACCCA-TAAGAAGAAGATGT
* * * * **
354182 TCGAGTTCTATACTCCTTAAAGAAAAAAGGAGCGATCTCGTAAAA
65 TCGAGTTCTATACTCC-TAAAGAAAGAGGGAGCGAACTCGTTAGT
* * * * * * *
354227 AGAAGA-CGTTCGAGTTCTATATTCCATGAAGAAAGAAGGAGCAAACTCATAAGAAGAATATGTT
1 TGAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAAGGAGCGAACCCATAAGAAGAAGATGTT
354291 CGAGTTCTATACTTCCTAAAGAAAGAGGGAGCGAACTCGTTAGT
66 CGAGTTCTATAC-TCCTAAAGAAAGAGGGAGCGAACTCGTTAGT
* * *
354335 TGAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGTGAACCCGTAAGAAGAAGATGTT
1 TGAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAAGGAGCGAACCCATAAGAAGAAGATGTT
*
354400 AGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACTCGTTAGT
66 CGAGTTCTATACT-CCTAAAGAAAGAGGGAGCGAACTCGTTAGT
* * * **** *
354444 TGAAGATTATTCGAATTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTTTAGAAGAATAT
1 TGAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAAGGAGCGAACCCATAAGAAGAAG-ATGT
* *
354509 TCGAGTTCTATACTCTCTGAAGAAAGAGGGAGGGAAC-CTGTT--T
65 TCGAGTTCTATACTC-CTAAAGAAAGAGGGAGCGAACTC-GTTAGT
* * * *
354552 TCAGAAGATTTTTTGAGTTCTATACTCCCTTAAAGAAA-AATGGAGTGAACCCATTTACAGAAG-
1 T--GAAGATTGTTCGAGTTCTATACTCCC-TGAAGAAAGAA-GGAGCGAACCCA--TA-AGAAGA
* * *
354615 AG-TGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTGGC
59 AGATGTTCGAGTTCTATACT-CCTAAAGAAAGAGGGAGCGAACTCGTTAGT
* * * * ** *
354665 AGATGATTATTCGAGTTCTATACTCCCTGAAAGAAAGAAGGAGTGAACCCATTTGCAGAAGAGTG
1 TGAAGATTGTTCGAGTTCTATACTCCCTG-AAGAAAGAAGGAGCGAACCCATAAGAAGAAGA-TG
* * * * * *
354730 TTCGAGTTCTTATACTCTCTGAAGAAATAGGGAG-AAGACACGATCGT
64 TTCGAGTTC-TATACTC-CTAAAGAAAGAGGGAGCGA-ACTCGTTAGT
354777 TGAAGATTGTTCGAGT
1 TGAAGATTGTTCGAGT
354793 CTTATGCTCT
Statistics
Matches: 466, Mismatches: 73, Indels: 50
0.79 0.12 0.08
Matches are distributed among these distances:
108 93 0.20
109 152 0.33
110 63 0.14
111 110 0.24
112 43 0.09
113 3 0.01
114 2 0.00
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (108 bp):
TGAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAAGGAGCGAACCCATAAGAAGAAGATGTT
CGAGTTCTATACTCCTAAAGAAAGAGGGAGCGAACTCGTTAGT
Found at i:354782 original size:56 final size:55
Alignment explanation
Indices: 354722--354927 Score: 256
Period size: 56 Copynumber: 3.7 Consensus size: 55
354712 CCCATTTGCA
* * *
354722 GAAGAGTGTTCGAGTTCTTATACTCTCTGAAGAAATAGGGAGAAGACACGATCGTT
1 GAAGATTGTTCGAG-TCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTT
*
354778 GAAGATTGTTCGAGTCTTATGCTCTCTGAAAGAAATAGGGAGCAGACACGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTG-AAGAAATAGGGAGCAGACACGATTGTT
* * ** * *
354834 GAAGATTGTTCGAGTCTTATGCTCTCTGAAGGAATAAAGAGCAGGCATGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTT
*
354889 GAAGA-TGTTCGAGT-TCTATACTCAT-TGAAGAAAGAGGGA
1 GAAGATTGTTCGAGTCT-TATACTC-TCTGAAGAAATAGGGA
354928 ACGAACTCGT
Statistics
Matches: 133, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
53 1 0.01
54 25 0.19
55 41 0.31
56 66 0.50
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (55 bp):
GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTT
Found at i:360093 original size:11 final size:11
Alignment explanation
Indices: 360079--360103 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
360069 AATGTAAACA
360079 TTAATATATTT
1 TTAATATATTT
360090 TTAATATATTT
1 TTAATATATTT
360101 TTA
1 TTA
360104 CCATAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TTAATATATTT
Found at i:360213 original size:15 final size:15
Alignment explanation
Indices: 360193--360223 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
360183 CAACAAATAG
360193 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
360208 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
360223 A
1 A
360224 TTTAGAATTT
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:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:360533 original size:22 final size:21
Alignment explanation
Indices: 360499--360539 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
360489 ATAATTATTT
360499 AAAAAATTAAATAAAAATACC
1 AAAAAATTAAATAAAAATACC
*
360520 AAAAATATTTAATAAAAATA
1 AAAAA-ATTAAATAAAAATA
360540 ATTTTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAAAATTAAATAAAAATACC
Found at i:363231 original size:30 final size:31
Alignment explanation
Indices: 363196--363257 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
363186 TTTAGAGATA
* * *
363196 AATTTAGAA-ATTATATGTAAATTTTGATTT
1 AATTTAGAATATAATATGAAAATTCTGATTT
*
363226 AATTTATAATATAATATGAAAATTCTGATTT
1 AATTTAGAATATAATATGAAAATTCTGATTT
363257 A
1 A
363258 GTGTGATTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 8 0.30
31 19 0.70
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.47
Consensus pattern (31 bp):
AATTTAGAATATAATATGAAAATTCTGATTT
Found at i:367364 original size:20 final size:20
Alignment explanation
Indices: 367301--367364 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
367291 ATTCTGATAT
* *
367301 ATTT-TATTTTAATCATTTA
1 ATTTATATTTTATTTATTTA
* * *
367320 CTTTATATTTTAATTTATGTC
1 ATTTATATTTT-ATTTATTTA
367341 ATTTATATTTTATTTATTTA
1 ATTTATATTTTATTTATTTA
367361 ATTT
1 ATTT
367365 CATTACTTTA
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
19 3 0.09
20 17 0.49
21 15 0.43
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.66
Consensus pattern (20 bp):
ATTTATATTTTATTTATTTA
Done.