Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003498.1 Hibiscus syriacus cultivar Beakdansim tig00007396_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: 386253
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 2 of 2
Found at i:275422 original size:20 final size:20
Alignment explanation
Indices: 275380--275424 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
275370 TAATTAGCGG
* * *
275380 TGCGAATTTGAAAATCGCGT
1 TGCGAATTTAAAAATCACAT
275400 TGCGAATTTAAAAATCACAT
1 TGCGAATTTAAAAATCACAT
275420 TGCGA
1 TGCGA
275425 TAGTACTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.29
Consensus pattern (20 bp):
TGCGAATTTAAAAATCACAT
Found at i:275490 original size:20 final size:20
Alignment explanation
Indices: 275465--275525 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
275455 ACCGATATAG
*
275465 GTAAACAATACTATCGCAAT
1 GTAAACAGTACTATCGCAAT
* *
275485 GTAAACAGTATTATTGCAAT
1 GTAAACAGTACTATCGCAAT
*
275505 ATAAACAGTACTATCGCAAT
1 GTAAACAGTACTATCGCAAT
275525 G
1 G
275526 CGATTTTTTA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.28
Consensus pattern (20 bp):
GTAAACAGTACTATCGCAAT
Found at i:275541 original size:20 final size:20
Alignment explanation
Indices: 275518--275566 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
275508 AACAGTACTA
* **
275518 TCGCAATGCGATTTTTTAAT
1 TCGCAACGCGATTTTCAAAT
275538 TCGCAACGCGATTTTCAAAT
1 TCGCAACGCGATTTTCAAAT
275558 TCGCAACGC
1 TCGCAACGC
275567 TAATTACCGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (20 bp):
TCGCAACGCGATTTTCAAAT
Found at i:275607 original size:20 final size:20
Alignment explanation
Indices: 275582--275642 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
275572 ACCGATATAG
*
275582 GTAAACAGTATTATCGCAAT
1 GTAAACAGTACTATCGCAAT
275602 GTAAACAGTACTATCGCAAT
1 GTAAACAGTACTATCGCAAT
* *
275622 ATAAACAGTACTATTGCAAT
1 GTAAACAGTACTATCGCAAT
275642 G
1 G
275643 CGATTTTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (20 bp):
GTAAACAGTACTATCGCAAT
Found at i:275607 original size:97 final size:96
Alignment explanation
Indices: 275485--275697 Score: 266
Period size: 97 Copynumber: 2.2 Consensus size: 96
275475 CTATCGCAAT
* * *****
275485 GTAAACAGTATTATTGCAATATAAACAGTACTATCGCAATGCGATTTTTTA-ATTCGCAACGCGA
1 GTAAACAGTATTATCGCAATATAAACAGTACTATCGCAAT-AGAAACAGTACATT-GCAACGCGA
*
275549 TTTTCAAATTCGCAACGCTAATTACCGATATAG
64 TTTTCAAATTCGCAACGCTAATTACCGAGATAG
* * *
275582 GTAAACAGTATTATCGCAATGTAAACAGTACTATCGCAATATAAACAGTACTATTGCAATGCGAT
1 GTAAACAGTATTATCGCAATATAAACAGTACTATCGCAATAGAAACAGTAC-ATTGCAACGCGAT
*
275647 TTTTAAATTCGCAACGCTAATTACCGAGATAG
65 TTTCAAATTCGCAACGCTAATTACCGAGATAG
* *
275679 GTAAACAGAACTATCGCAA
1 GTAAACAGTATTATCGCAA
275698 CGCGATTTTC
Statistics
Matches: 100, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
96 3 0.03
97 94 0.94
98 3 0.03
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (96 bp):
GTAAACAGTATTATCGCAATATAAACAGTACTATCGCAATAGAAACAGTACATTGCAACGCGATT
TTCAAATTCGCAACGCTAATTACCGAGATAG
Found at i:275641 original size:117 final size:117
Alignment explanation
Indices: 275433--275663 Score: 408
Period size: 117 Copynumber: 2.0 Consensus size: 117
275423 GATAGTACTG
*
275433 TTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAATACTATCGCAATGTAAACAGTATTA
1 TTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAATACTATCGCAATGTAAACAGTACTA
* *
275498 TTGCAATATAAACAGTACTATCGCAATGCGATTTTTTAATTCGCAACGCGAT
66 TCGCAATATAAACAGTACTATCGCAATGCGATTTTTAAATTCGCAACGCGAT
* *
275550 TTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTATTATCGCAATGTAAACAGTACTA
1 TTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAATACTATCGCAATGTAAACAGTACTA
*
275615 TCGCAATATAAACAGTACTATTGCAATGCGATTTTTAAATTCGCAACGC
66 TCGCAATATAAACAGTACTATCGCAATGCGATTTTTAAATTCGCAACGC
275664 TAATTACCGA
Statistics
Matches: 108, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
117 108 1.00
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (117 bp):
TTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAATACTATCGCAATGTAAACAGTACTA
TCGCAATATAAACAGTACTATCGCAATGCGATTTTTAAATTCGCAACGCGAT
Found at i:275692 original size:57 final size:57
Alignment explanation
Indices: 275623--275759 Score: 193
Period size: 57 Copynumber: 2.4 Consensus size: 57
275613 TATCGCAATA
* * * * *
275623 TAAACAGTACTATTGCAATGCGATTTTTAAATTCGCAACGCTAATTACCGAGATAGG
1 TAAACAGAACTATCGCAACGCGATTTTCAAATTCACAACGCTAATTACCGAGATAGG
* * *
275680 TAAACAGAACTATCGCAACGCGATTTTCAAATTCACAACTCTAATTATCGATATAGG
1 TAAACAGAACTATCGCAACGCGATTTTCAAATTCACAACGCTAATTACCGAGATAGG
*
275737 TAAACACAACTATCGCAACGCGA
1 TAAACAGAACTATCGCAACGCGA
275760 ATTTGGAAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 71 1.00
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (57 bp):
TAAACAGAACTATCGCAACGCGATTTTCAAATTCACAACGCTAATTACCGAGATAGG
Found at i:277288 original size:170 final size:171
Alignment explanation
Indices: 276998--277341 Score: 647
Period size: 170 Copynumber: 2.0 Consensus size: 171
276988 CGGATATTTC
276998 GGTTGCATTTTCAATTTTGGAGATGTAAAAGAATAAGAACGACAAGAAGAACGGGGGGTGACCAA
1 GGTTGCATTTTCAATTTTGGAGATGTAAAAGAATAAGAACGACAAGAAGAAC--GGGGTGACCAA
277063 AATGCAATACTATTAGAAGTTTGGGAATTATTTGTACATTTTATCCTAAAAATATGTCAAGTAGC
64 AATGCAATACTATTAGAAGTTTGGGAATTATTTGTACATTTTATCCTAAAAATATGTCAAGTAGC
277128 A-TTCACCGTCAAAATTAACGGTGTCGGAGTAGCCACCAAACT
129 ATTTCACCGTCAAAATTAACGGTGTCGGAGTAGCCACCAAACT
277170 GGTTGCCATTTTCAATTTTGGAGATGTAAAAGAATAAGAACGACAAGAAGAAC-GGGTGACCAAA
1 GGTTG-CATTTTCAATTTTGGAGATGTAAAAGAATAAGAACGACAAGAAGAACGGGGTGACCAAA
277234 ATGCAATACTATTAGAAGTTTGGGAATTATTTGTACATTTTATCCTAAAAATATGTCAAGTAGCA
65 ATGCAATACTATTAGAAGTTTGGGAATTATTTGTACATTTTATCCTAAAAATATGTCAAGTAGCA
277299 TTTCACCGTCAAAATTAACGGTGTCGGAGTAGCCACCAAACT
130 TTTCACCGTCAAAATTAACGGTGTCGGAGTAGCCACCAAACT
277341 G
1 G
277342 AATTACAAAA
Statistics
Matches: 170, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
170 76 0.45
171 42 0.25
172 5 0.03
173 47 0.28
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.28
Consensus pattern (171 bp):
GGTTGCATTTTCAATTTTGGAGATGTAAAAGAATAAGAACGACAAGAAGAACGGGGTGACCAAAA
TGCAATACTATTAGAAGTTTGGGAATTATTTGTACATTTTATCCTAAAAATATGTCAAGTAGCAT
TTCACCGTCAAAATTAACGGTGTCGGAGTAGCCACCAAACT
Found at i:280434 original size:2 final size:2
Alignment explanation
Indices: 280427--280484 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
280417 TTTTTCTTTA
280427 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
280469 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
280485 TGATAATTTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:281486 original size:29 final size:29
Alignment explanation
Indices: 281405--281508 Score: 91
Period size: 29 Copynumber: 3.5 Consensus size: 29
281395 ATTTTTCATT
* * *
281405 TAAGTACTTAAAGTATTTTTTTAGTCAACA
1 TAAGTACCTAAAGTATTTTTTGA-TCAAAA
* ** *
281435 TGAGTATATAAATTTATCTTTTTGATCAAAA
1 TAAGTACCTAAA-GTAT-TTTTTGATCAAAA
*
281466 TAAGTACCTAAAGTATTTTTTGATTAAAA
1 TAAGTACCTAAAGTATTTTTTGATCAAAA
* *
281495 TATGTATCTAAAGT
1 TAAGTACCTAAAGT
281509 GTTCAATTTT
Statistics
Matches: 59, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
29 24 0.41
30 12 0.20
31 17 0.29
32 6 0.10
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (29 bp):
TAAGTACCTAAAGTATTTTTTGATCAAAA
Found at i:281666 original size:30 final size:28
Alignment explanation
Indices: 281597--281679 Score: 87
Period size: 28 Copynumber: 2.9 Consensus size: 28
281587 AAATTTGAAT
* *
281597 ACTTTAGGTACGTATGTTGATCAAAACAA
1 ACTTTAGGTACTTATTTTGAT-AAAACAA
* *
281626 A-TTTATGTACTTATTTTGATAGAAAGATA
1 ACTTTAGGTACTTATTTTGATA-AAACA-A
*
281655 ACTTTAGGTACTTCTTTTGATAAAA
1 ACTTTAGGTACTTATTTTGATAAAA
281680 AAAAATACTT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
27 1 0.02
28 20 0.44
29 6 0.13
30 18 0.40
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (28 bp):
ACTTTAGGTACTTATTTTGATAAAACAA
Found at i:300190 original size:25 final size:27
Alignment explanation
Indices: 300143--300195 Score: 83
Period size: 25 Copynumber: 2.0 Consensus size: 27
300133 AAGACTTACA
300143 TTATAAATAAGTACCTAAAATATACCT
1 TTATAAATAAGTACCTAAAATATACCT
*
300170 TTATAAAT-A-TACCTAACATATACCT
1 TTATAAATAAGTACCTAAAATATACCT
300195 T
1 T
300196 CTTTTTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 16 0.64
26 1 0.04
27 8 0.32
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (27 bp):
TTATAAATAAGTACCTAAAATATACCT
Found at i:300257 original size:26 final size:28
Alignment explanation
Indices: 300213--300271 Score: 86
Period size: 26 Copynumber: 2.1 Consensus size: 28
300203 TTTAAATACC
300213 TAAAGTATTTTTGAGTCAAAATAAGTACA
1 TAAAGTATTTTT-AGTCAAAATAAGTACA
*
300242 TAAAGT-TTTTT-GTCAAAATAAGTACC
1 TAAAGTATTTTTAGTCAAAATAAGTACA
300268 TAAA
1 TAAA
300272 CTATCAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 18 0.62
28 5 0.17
29 6 0.21
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (28 bp):
TAAAGTATTTTTAGTCAAAATAAGTACA
Found at i:300451 original size:28 final size:29
Alignment explanation
Indices: 300355--300455 Score: 82
Period size: 31 Copynumber: 3.4 Consensus size: 29
300345 TGAAAAATTG
* *
300355 AATACTTTAGGCACCTA-TTTTGATCCAAAAA
1 AATACTTTA-GTACCTATTTTTGA--CTAAAA
300386 AATACTTTAGGTACCTATTTTTGACTAAAA
1 AATACTTTA-GTACCTATTTTTGACTAAAA
* * *
300416 GATAACTTTAGTA-TTTTTTTTGAAC-AAAA
1 AAT-ACTTTAGTACCTATTTTTG-ACTAAAA
300445 AATACTTTAGT
1 AATACTTTAGT
300456 TACTTAAATG
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
28 8 0.13
29 13 0.21
30 12 0.20
31 22 0.36
32 6 0.10
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.40
Consensus pattern (29 bp):
AATACTTTAGTACCTATTTTTGACTAAAA
Found at i:300735 original size:6 final size:6
Alignment explanation
Indices: 300724--300748 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
300714 AAATGGGTTT
300724 TCCCCG TCCCCG TCCCCG TCCCCG T
1 TCCCCG TCCCCG TCCCCG TCCCCG T
300749 TTATTATCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.64, G:0.16, T:0.20
Consensus pattern (6 bp):
TCCCCG
Found at i:301958 original size:4 final size:4
Alignment explanation
Indices: 301944--302963 Score: 1718
Period size: 4 Copynumber: 259.2 Consensus size: 4
301934 TGCATATACA
* *
301944 TATG CATG TATG TATG TATG CATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
301992 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
302040 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * *
302088 TATG TATG TATG TATG TATG TATG TATG TATG TATG CATG CATA CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
302136 CATG -ATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
302183 TATG CATG TATG TATG TATG CATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
302231 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
302279 TATG TATG TA-G TATG TATG TATG TATG TATG TA-G TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
302325 GATG TATG TATG TATG TATG TATG T-TG TTATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG -TATG TATG TATG TATG TATG
302373 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
302421 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
302469 TATG TATG TATG CATG CATA CATG CATG -ATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
302516 TATG TATG TATG TATG TATG TATG TATG TATG TATG TGTG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
302564 CATG TATG TATG TATG TATG TAGG TATG TATG TAT- TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
302611 TATG TATG TATG TATG TA-G TATG TATG TATG TATG TATG TATG TA--
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
302656 TATG T-TG TATG TATG TATG TATG TATG TATG TA-G TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
302702 TATG TA-- TATG TATG TATG TATG TATG TATG TATG TA-- TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
302746 TATG TA-G TATG TATG TATG TATG TATG TATG TATG TAT- TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
302792 TATG TATG TATG TATG TATG TATG TAT- TAATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG T-ATG TATG TATG TATG TATG
302840 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
302888 TATG TA-G TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
302935 TATG TATG TATG TATG CATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG T
302964 GAAGAAAGCT
Statistics
Matches: 971, Mismatches: 24, Indels: 42
0.94 0.02 0.04
Matches are distributed among these distances:
2 6 0.01
3 36 0.04
4 926 0.95
5 3 0.00
ACGTcount: A:0.25, C:0.01, G:0.25, T:0.48
Consensus pattern (4 bp):
TATG
Found at i:315503 original size:3 final size:3
Alignment explanation
Indices: 315495--315579 Score: 154
Period size: 3 Copynumber: 28.7 Consensus size: 3
315485 TTTTTATCCA
315495 TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
315542 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
315580 ATATCCAACC
Statistics
Matches: 79, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
2 2 0.03
3 77 0.97
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:316892 original size:35 final size:36
Alignment explanation
Indices: 316853--316933 Score: 96
Period size: 36 Copynumber: 2.3 Consensus size: 36
316843 TCATAATTTA
* *
316853 ATTATTTTAT-ATGTTTTCATTTTATTGTT-TAAAAT
1 ATTATTTTATGATATTTT-ATTTTATTATTGTAAAAT
*
316888 ATTATTTTAGTGATATTTTATTTTATTATTGTTAAAT
1 ATTATTTTA-TGATATTTTATTTTATTATTGTAAAAT
316925 ATT-TTTTAT
1 ATTATTTTAT
316934 TTTGATATCG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
35 10 0.25
36 16 0.40
37 14 0.35
ACGTcount: A:0.28, C:0.01, G:0.06, T:0.64
Consensus pattern (36 bp):
ATTATTTTATGATATTTTATTTTATTATTGTAAAAT
Found at i:317015 original size:17 final size:17
Alignment explanation
Indices: 316993--317026 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
316983 ATATTTATAA
316993 TTAAAAA-TAAATATTAT
1 TTAAAAACT-AATATTAT
317010 TTAAAAACTAATATTAT
1 TTAAAAACTAATATTAT
317027 CAATATCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.94
18 1 0.06
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAAAACTAATATTAT
Found at i:317192 original size:25 final size:25
Alignment explanation
Indices: 317147--317200 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
317137 ATTTTGAATT
*
317147 TTTAAATTTTTAATAATAGAGACAA
1 TTTAAATATTTAATAATAGAGACAA
317172 TTTAAATAATTTAATAA-AGAGACAA
1 TTTAAAT-ATTTAATAATAGAGACAA
317197 TTTA
1 TTTA
317201 TAATTAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 19 0.70
26 8 0.30
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.39
Consensus pattern (25 bp):
TTTAAATATTTAATAATAGAGACAA
Found at i:319258 original size:14 final size:15
Alignment explanation
Indices: 319237--319279 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
319227 ATTTTAAATA
319237 ATTTACATTTACATT
1 ATTTACATTTACATT
*
319252 A-TTACATTCACA-T
1 ATTTACATTTACATT
*
319265 ATTTACATTTGCATT
1 ATTTACATTTACATT
319280 TGGCATCTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 2 0.09
14 19 0.83
15 2 0.09
ACGTcount: A:0.33, C:0.16, G:0.02, T:0.49
Consensus pattern (15 bp):
ATTTACATTTACATT
Found at i:322363 original size:1 final size:1
Alignment explanation
Indices: 322357--322386 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
322347 GCAAAGAAAG
322357 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
322387 GGAAAATTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:324724 original size:83 final size:83
Alignment explanation
Indices: 324623--324887 Score: 460
Period size: 83 Copynumber: 3.2 Consensus size: 83
324613 AATGGAACAA
324623 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
324688 AATCATTGAATTTGGAAG
66 AATCATTGAATTTGGAAG
324706 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
*
324771 AATCATTGAATTTAGAAG
66 AATCATTGAATTTGGAAG
* * * *
324789 ATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGG-TTGGACAGAAC
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAAAAC
324853 CAATCATTGAATTTGGAAG
65 CAATCATTGAATTTGGAAG
*
324872 ATGAATTTGCTCATAG
1 ATGAATGTGCTCATAG
324888 TAGAAATAAG
Statistics
Matches: 174, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
82 4 0.02
83 170 0.98
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.37
Consensus pattern (83 bp):
ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
AATCATTGAATTTGGAAG
Found at i:327115 original size:54 final size:54
Alignment explanation
Indices: 327033--327144 Score: 188
Period size: 54 Copynumber: 2.1 Consensus size: 54
327023 CAATGATTGA
* **
327033 GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
1 GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGCGCCGTCAAATGTTTTAC
*
327087 GAACATCTGAGCAGAAACTACAGGAAAGGATGAATGCGCCGTCAAATGTTTTAC
1 GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGCGCCGTCAAATGTTTTAC
327141 GAAC
1 GAAC
327145 CTGCTATTCT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (54 bp):
GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGCGCCGTCAAATGTTTTAC
Found at i:327530 original size:22 final size:22
Alignment explanation
Indices: 327504--327580 Score: 118
Period size: 22 Copynumber: 3.5 Consensus size: 22
327494 ATCTACACTC
327504 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
327526 TTCAAAGATGATAGATTCCCTT
1 TTCAAAGATGATAGATTCTCTT
* * *
327548 TTTAAAGATGACATATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
327570 TTCAAAGATGA
1 TTCAAAGATGA
327581 AAGCTTTATC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:328179 original size:113 final size:113
Alignment explanation
Indices: 327980--328658 Score: 830
Period size: 113 Copynumber: 6.0 Consensus size: 113
327970 TTAGCAAAGT
* **
327980 TTAAATCCATCATTCAATGGATCAACATT-CCAG-GTCGAGTTCATAATGAGAAGAACTCATCTG
1 TTAAATCCATCATTCGATGGATCAACATTACCAGAG-AAAGTTCATAATGAGAAGAACTCATCTG
* *
328043 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* * **** *
328092 TCAAATCCATCATTCGATGGATCAGCATTACCAGTTCGAGTTCATAATGAGAAGATCTCATCTGA
1 TTAAATCCATCATTCGATGGATCAACATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
**
328157 AGAAAAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT-GC
* * ****
328205 TTAAATTCATCATTCGA-GGATTCAGCATTACCAGTTCGAGTTCATAATGAGAAGAACTCATCTG
1 TTAAATCCATCATTCGATGGA-TCAACATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
** **
328269 AAGAAAAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTAT
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* * *
328318 TTGAATTCATCACTT-GATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCGTCAT
1 TTAAATCCATCA-TTCGATGGATCAACATTACCAGAGAAAGTTCATAATGAGAAGAA--C-TCAT
* *
328382 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAC
62 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* * * * * *
328434 CTGAATCCATCATTTGGTGGATCATA-TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
1 TTAAATCCATCATTCGATGGATCA-ACATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
* *
328498 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGT
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC-CTTTTGC
* * ** * *
328548 TTAAATTCATCATTTGATGGATCAACAGAACCAAAGAAAATTCATGAATGAGAAGAACTCATCTG
1 TTAAATCCATCATTCGATGGATCAACATTACCAGAGAAAGTTCAT-AATGAGAAGAACTCATCTG
*
328613 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
328659 GTTTGATATC
Statistics
Matches: 507, Mismatches: 45, Indels: 28
0.87 0.08 0.05
Matches are distributed among these distances:
112 34 0.07
113 259 0.51
114 51 0.10
115 63 0.12
116 99 0.20
117 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.28
Consensus pattern (113 bp):
TTAAATCCATCATTCGATGGATCAACATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
Found at i:328480 original size:229 final size:227
Alignment explanation
Indices: 328017--328658 Score: 839
Period size: 229 Copynumber: 2.8 Consensus size: 227
328007 TTCCAGGTCG
* *
328017 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * * ****
328082 AACCTTTTGCTCAAATCCATCATTCGATGGATCAGCATTACCAGTTCGAGTTCATAATGAGAAG-
66 AACCTTTTGTTTAAATTCATCATT-GATGGATCAACATTACCAGAGAAAGTTCATAATGAGAAGA
**
328146 ATCTCATCTGAAGAAAAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCGCTTAAA
130 ATCTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTCGCTTAAA
* ****
328210 TTCATCATTCGAGGATTCAGCATTACCAGTTCG
195 TCCATCATTCGAGGATTCAGCATTACCAGAGAA
**
328243 AGTTCATAATGAGAAGAACTCATCTGAAGAAAAAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * *
328308 AACCTTTTATTTGAATTCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGA
66 AACCTTTTGTTTAAATTCATCA-TTGATGGATCAACATTACCAGAGAAAGTTCATAATGAGAAGA
*
328373 ACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAC-C-T
130 A-TC-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT-CGCTT
* * * * *
328436 GAATCCATCATTTGGTGGA-TCA-TATTTTCCAGAGAA
192 AAATCCATCA-TTCGAGGATTCAGCA-TTACCAGAGAA
328472 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* ** * *
328537 AACTTTTTTGTTTAAATTCATCATTTGATGGATCAACAGAACCAAAGAAAATTCATGAATGAGAA
66 AAC-CTTTTGTTTAAATTCATCA-TTGATGGATCAACATTACCAGAGAAAGTTCAT-AATGAGAA
*
328602 GAA-CTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
128 GAATCTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
328659 GTTTGATATC
Statistics
Matches: 365, Mismatches: 41, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
226 111 0.30
227 3 0.01
228 54 0.15
229 130 0.36
230 55 0.15
231 12 0.03
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (227 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACCTTTTGTTTAAATTCATCATTGATGGATCAACATTACCAGAGAAAGTTCATAATGAGAAGAA
TCTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTCGCTTAAAT
CCATCATTCGAGGATTCAGCATTACCAGAGAA
Found at i:328798 original size:113 final size:114
Alignment explanation
Indices: 328667--328947 Score: 404
Period size: 115 Copynumber: 2.5 Consensus size: 114
328657 TTGTTTGATA
* *
328667 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCA
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTAAATCCA
* * ** * *
328732 TCATTTGGTGGATCATA-TTTTCCAGAGAAAGTTCAT-AATGAGAAGAAC
66 TCATTTGATGGATCA-ACATGGCCAAAGAAAATTCATGAATGAGAAGAAC
* *** *
328780 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATTC
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC-CTTTTACCTAAATCC
328845 ATCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAAC
65 ATCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAAC
*
328895 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
328948 GTTTGATATC
Statistics
Matches: 150, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
113 49 0.33
114 41 0.27
115 60 0.40
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.28
Consensus pattern (114 bp):
TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTAAATCCA
TCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAAC
Found at i:328815 original size:174 final size:174
Alignment explanation
Indices: 328491--328835 Score: 507
Period size: 174 Copynumber: 2.0 Consensus size: 174
328481 TGAGAAGAAC
* *** *
328491 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATTC
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTCTTTTACCTAAATCC
328556 ATCATTTGATGGATCAACAGAACCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGA
66 ATCATTTGATGGATCAACAGAACCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGA
*
328621 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTGTTTGATA
131 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTT-TTTGATA
* *
328667 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC-CTTTTACCTGAATCC
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTCTTTTACCTAAATCC
* **** * *
328731 ATCATTTGGTGGATCATA-TTTTCCAGAGAAAGTTCAT-AATGAGAAGAACTCATCTGAAGAAGG
66 ATCATTTGATGGATCA-ACAGAACCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGG
328794 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTG
130 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTG
328836 TTTAAATTCA
Statistics
Matches: 153, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
172 4 0.03
173 4 0.03
174 59 0.39
175 37 0.24
176 49 0.32
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (174 bp):
TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTCTTTTACCTAAATCC
ATCATTTGATGGATCAACAGAACCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGATA
Found at i:328897 original size:289 final size:289
Alignment explanation
Indices: 328378--331017 Score: 5221
Period size: 289 Copynumber: 9.1 Consensus size: 289
328368 GAAGAACTCG
328378 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCA
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCA
328443 TCATTTGGTGGATCATATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
66 TCATTTGGTGGATCATATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
328508 AAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATTCATCATTTGATGGATCAA
131 AAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATTCATCATTTGATGGATCAA
*
328573 CA-GAACCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
196 CATG-GCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
328637 GAGAAGAGCTTGTTCAACCTTTGTTTGATA
260 GAGAAGAGCTTGTTCAACCTTTGTTTGATA
328667 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCA
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCA
328732 TCATTTGGTGGATCATATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
66 TCATTTGGTGGATCATATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
328797 AAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATTCATCATTTGATGGATCAA
131 AAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATTCATCATTTGATGGATCAA
328862 CATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
196 CATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
328927 AGAAGAGCTTGTTCAACCTTTGTTTGATA
261 AGAAGAGCTTGTTCAACCTTTGTTTGATA
328956 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCA
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCA
329021 TCATTTGGTGGATCATATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
66 TCATTTGGTGGATCATATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
329086 AAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATTCATCATTTGATGGATCAA
131 AAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATTCATCATTTGATGGATCAA
329151 CATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
196 CATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
329216 AGAAGAGCTTGTTCAACCTTTGTTTGATA
261 AGAAGAGCTTGTTCAACCTTTGTTTGATA
329245 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCA
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCA
329310 TCATTTGGTGGATCATATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
66 TCATTTGGTGGATCATATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
329375 AAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATTCATCATTTGATGGATCAA
131 AAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATTCATCATTTGATGGATCAA
329440 CATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
196 CATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
329505 AGAAGAGCTTGTTCAACCTTTGTTTGATA
261 AGAAGAGCTTGTTCAACCTTTGTTTGATA
329534 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCA
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCA
329599 TCATTTGGTGGATCATATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
66 TCATTTGGTGGATCATATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
329664 AAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATTCATCATTTGATGGATCAA
131 AAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATTCATCATTTGATGGATCAA
329729 CATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
196 CATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
329794 AGAAGAGCTTGTTCAACCTTTGTTTGATA
261 AGAAGAGCTTGTTCAACCTTTGTTTGATA
329823 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCA
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCA
329888 TCATTTGGTGGATCATATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
66 TCATTTGGTGGATCATATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
329953 AAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATTCATCATTTGATGGATCAA
131 AAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATTCATCATTTGATGGATCAA
330018 CATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
196 CATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
330083 AGAAGAGCTTGTTCAACCTTTGTTTGATA
261 AGAAGAGCTTGTTCAACCTTTGTTTGATA
330112 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCA
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCA
330177 TCATTTGGTGGATCATATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
66 TCATTTGGTGGATCATATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
330242 AAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATTCATCATTTGATGGATCAA
131 AAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATTCATCATTTGATGGATCAA
330307 CATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
196 CATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
330372 AGAAGAGCTTGTTCAACCTTTGTTTGATA
261 AGAAGAGCTTGTTCAACCTTTGTTTGATA
330401 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCA
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCA
330466 TCATTTGGTGGATCATATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
66 TCATTTGGTGGATCATATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
330531 AAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATTCATCATTTGATGGATCAA
131 AAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATTCATCATTTGATGGATCAA
330596 CATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
196 CATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
330661 AGAAGAGCTTGTTCAACCTTTGTTTGATA
261 AGAAGAGCTTGTTCAACCTTTGTTTGATA
330690 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCA
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCA
330755 TCATTTGGTGGATCATATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
66 TCATTTGGTGGATCATATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
330820 AAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATTCATCATTTGATGGATCAA
131 AAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATTCATCATTTGATGGATCAA
*
330885 CATGGCCAAAGAAAGTTCATGAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
196 CATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
330950 AGAAGAGCTTGTTCAACCTTTGTTTGATA
261 AGAAGAGCTTGTTCAACCTTTGTTTGATA
*
330979 TCATCTGAAGAAAGAAG-AGAAAGTTCATAATGAGAAGAA
1 TCATCTGAAGAAGGAAGAAG-AAGTTCATAATGAGAAGAA
331018 CTCATCAAGA
Statistics
Matches: 2346, Mismatches: 3, Indels: 4
1.00 0.00 0.00
Matches are distributed among these distances:
288 2 0.00
289 2343 1.00
290 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (289 bp):
TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCA
TCATTTGGTGGATCATATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
AAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATTCATCATTTGATGGATCAA
CATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
AGAAGAGCTTGTTCAACCTTTGTTTGATA
Found at i:329087 original size:113 final size:114
Alignment explanation
Indices: 328956--329236 Score: 404
Period size: 115 Copynumber: 2.5 Consensus size: 114
328946 TTGTTTGATA
* *
328956 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCA
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTAAATCCA
* * ** * *
329021 TCATTTGGTGGATCATA-TTTTCCAGAGAAAGTTCAT-AATGAGAAGAAC
66 TCATTTGATGGATCA-ACATGGCCAAAGAAAATTCATGAATGAGAAGAAC
* *** *
329069 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATTC
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC-CTTTTACCTAAATCC
329134 ATCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAAC
65 ATCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAAC
*
329184 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
329237 GTTTGATATC
Statistics
Matches: 150, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
113 49 0.33
114 41 0.27
115 60 0.40
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.28
Consensus pattern (114 bp):
TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTAAATCCA
TCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAAC
Found at i:329104 original size:174 final size:174
Alignment explanation
Indices: 328780--329124 Score: 516
Period size: 174 Copynumber: 2.0 Consensus size: 174
328770 TGAGAAGAAC
* *** *
328780 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATTC
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTCTTTTACCTAAATCC
328845 ATCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGA
66 ATCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGA
*
328910 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTGTTTGATA
131 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTT-TTTGATA
* *
328956 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC-CTTTTACCTGAATCC
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTCTTTTACCTAAATCC
* * ** * *
329020 ATCATTTGGTGGATCATA-TTTTCCAGAGAAAGTTCAT-AATGAGAAGAACTCATCTGAAGAAGG
66 ATCATTTGATGGATCA-ACATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGG
329083 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTG
130 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTG
329125 TTTAAATTCA
Statistics
Matches: 154, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
172 4 0.03
173 4 0.03
174 59 0.38
175 38 0.25
176 49 0.32
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.29
Consensus pattern (174 bp):
TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTCTTTTACCTAAATCC
ATCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGATA
Found at i:329376 original size:113 final size:114
Alignment explanation
Indices: 329245--329525 Score: 404
Period size: 115 Copynumber: 2.5 Consensus size: 114
329235 TTGTTTGATA
* *
329245 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCA
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTAAATCCA
* * ** * *
329310 TCATTTGGTGGATCATA-TTTTCCAGAGAAAGTTCAT-AATGAGAAGAAC
66 TCATTTGATGGATCA-ACATGGCCAAAGAAAATTCATGAATGAGAAGAAC
* *** *
329358 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATTC
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC-CTTTTACCTAAATCC
329423 ATCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAAC
65 ATCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAAC
*
329473 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
329526 GTTTGATATC
Statistics
Matches: 150, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
113 49 0.33
114 41 0.27
115 60 0.40
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.28
Consensus pattern (114 bp):
TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTAAATCCA
TCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAAC
Found at i:329393 original size:174 final size:174
Alignment explanation
Indices: 329069--329413 Score: 516
Period size: 174 Copynumber: 2.0 Consensus size: 174
329059 TGAGAAGAAC
* *** *
329069 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATTC
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTCTTTTACCTAAATCC
329134 ATCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGA
66 ATCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGA
*
329199 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTGTTTGATA
131 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTT-TTTGATA
* *
329245 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC-CTTTTACCTGAATCC
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTCTTTTACCTAAATCC
* * ** * *
329309 ATCATTTGGTGGATCATA-TTTTCCAGAGAAAGTTCAT-AATGAGAAGAACTCATCTGAAGAAGG
66 ATCATTTGATGGATCA-ACATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGG
329372 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTG
130 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTG
329414 TTTAAATTCA
Statistics
Matches: 154, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
172 4 0.03
173 4 0.03
174 59 0.38
175 38 0.25
176 49 0.32
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.29
Consensus pattern (174 bp):
TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTCTTTTACCTAAATCC
ATCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGATA
Found at i:329665 original size:113 final size:114
Alignment explanation
Indices: 329534--329814 Score: 404
Period size: 115 Copynumber: 2.5 Consensus size: 114
329524 TTGTTTGATA
* *
329534 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCA
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTAAATCCA
* * ** * *
329599 TCATTTGGTGGATCATA-TTTTCCAGAGAAAGTTCAT-AATGAGAAGAAC
66 TCATTTGATGGATCA-ACATGGCCAAAGAAAATTCATGAATGAGAAGAAC
* *** *
329647 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATTC
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC-CTTTTACCTAAATCC
329712 ATCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAAC
65 ATCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAAC
*
329762 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
329815 GTTTGATATC
Statistics
Matches: 150, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
113 49 0.33
114 41 0.27
115 60 0.40
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.28
Consensus pattern (114 bp):
TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTAAATCCA
TCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAAC
Found at i:329682 original size:174 final size:174
Alignment explanation
Indices: 329358--329702 Score: 516
Period size: 174 Copynumber: 2.0 Consensus size: 174
329348 TGAGAAGAAC
* *** *
329358 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATTC
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTCTTTTACCTAAATCC
329423 ATCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGA
66 ATCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGA
*
329488 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTGTTTGATA
131 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTT-TTTGATA
* *
329534 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC-CTTTTACCTGAATCC
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTCTTTTACCTAAATCC
* * ** * *
329598 ATCATTTGGTGGATCATA-TTTTCCAGAGAAAGTTCAT-AATGAGAAGAACTCATCTGAAGAAGG
66 ATCATTTGATGGATCA-ACATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGG
329661 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTG
130 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTG
329703 TTTAAATTCA
Statistics
Matches: 154, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
172 4 0.03
173 4 0.03
174 59 0.38
175 38 0.25
176 49 0.32
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.29
Consensus pattern (174 bp):
TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTCTTTTACCTAAATCC
ATCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGATA
Found at i:329954 original size:113 final size:114
Alignment explanation
Indices: 329823--330103 Score: 404
Period size: 115 Copynumber: 2.5 Consensus size: 114
329813 TTGTTTGATA
* *
329823 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCA
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTAAATCCA
* * ** * *
329888 TCATTTGGTGGATCATA-TTTTCCAGAGAAAGTTCAT-AATGAGAAGAAC
66 TCATTTGATGGATCA-ACATGGCCAAAGAAAATTCATGAATGAGAAGAAC
* *** *
329936 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATTC
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC-CTTTTACCTAAATCC
330001 ATCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAAC
65 ATCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAAC
*
330051 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
330104 GTTTGATATC
Statistics
Matches: 150, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
113 49 0.33
114 41 0.27
115 60 0.40
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.28
Consensus pattern (114 bp):
TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTAAATCCA
TCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAAC
Found at i:329971 original size:174 final size:174
Alignment explanation
Indices: 329647--329991 Score: 516
Period size: 174 Copynumber: 2.0 Consensus size: 174
329637 TGAGAAGAAC
* *** *
329647 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATTC
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTCTTTTACCTAAATCC
329712 ATCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGA
66 ATCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGA
*
329777 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTGTTTGATA
131 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTT-TTTGATA
* *
329823 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC-CTTTTACCTGAATCC
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTCTTTTACCTAAATCC
* * ** * *
329887 ATCATTTGGTGGATCATA-TTTTCCAGAGAAAGTTCAT-AATGAGAAGAACTCATCTGAAGAAGG
66 ATCATTTGATGGATCA-ACATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGG
329950 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTG
130 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTG
329992 TTTAAATTCA
Statistics
Matches: 154, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
172 4 0.03
173 4 0.03
174 59 0.38
175 38 0.25
176 49 0.32
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.29
Consensus pattern (174 bp):
TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTCTTTTACCTAAATCC
ATCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGATA
Found at i:330243 original size:113 final size:114
Alignment explanation
Indices: 330112--330392 Score: 404
Period size: 115 Copynumber: 2.5 Consensus size: 114
330102 TTGTTTGATA
* *
330112 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCA
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTAAATCCA
* * ** * *
330177 TCATTTGGTGGATCATA-TTTTCCAGAGAAAGTTCAT-AATGAGAAGAAC
66 TCATTTGATGGATCA-ACATGGCCAAAGAAAATTCATGAATGAGAAGAAC
* *** *
330225 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATTC
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC-CTTTTACCTAAATCC
330290 ATCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAAC
65 ATCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAAC
*
330340 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
330393 GTTTGATATC
Statistics
Matches: 150, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
113 49 0.33
114 41 0.27
115 60 0.40
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.28
Consensus pattern (114 bp):
TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTAAATCCA
TCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAAC
Found at i:330260 original size:174 final size:174
Alignment explanation
Indices: 329936--330280 Score: 516
Period size: 174 Copynumber: 2.0 Consensus size: 174
329926 TGAGAAGAAC
* *** *
329936 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATTC
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTCTTTTACCTAAATCC
330001 ATCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGA
66 ATCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGA
*
330066 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTGTTTGATA
131 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTT-TTTGATA
* *
330112 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC-CTTTTACCTGAATCC
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTCTTTTACCTAAATCC
* * ** * *
330176 ATCATTTGGTGGATCATA-TTTTCCAGAGAAAGTTCAT-AATGAGAAGAACTCATCTGAAGAAGG
66 ATCATTTGATGGATCA-ACATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGG
330239 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTG
130 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTG
330281 TTTAAATTCA
Statistics
Matches: 154, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
172 4 0.03
173 4 0.03
174 59 0.38
175 38 0.25
176 49 0.32
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.29
Consensus pattern (174 bp):
TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTCTTTTACCTAAATCC
ATCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGATA
Found at i:330532 original size:113 final size:114
Alignment explanation
Indices: 330401--330681 Score: 404
Period size: 115 Copynumber: 2.5 Consensus size: 114
330391 TTGTTTGATA
* *
330401 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCA
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTAAATCCA
* * ** * *
330466 TCATTTGGTGGATCATA-TTTTCCAGAGAAAGTTCAT-AATGAGAAGAAC
66 TCATTTGATGGATCA-ACATGGCCAAAGAAAATTCATGAATGAGAAGAAC
* *** *
330514 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATTC
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC-CTTTTACCTAAATCC
330579 ATCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAAC
65 ATCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAAC
*
330629 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
330682 GTTTGATATC
Statistics
Matches: 150, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
113 49 0.33
114 41 0.27
115 60 0.40
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.28
Consensus pattern (114 bp):
TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTAAATCCA
TCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAAC
Found at i:330549 original size:174 final size:174
Alignment explanation
Indices: 330225--330569 Score: 516
Period size: 174 Copynumber: 2.0 Consensus size: 174
330215 TGAGAAGAAC
* *** *
330225 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATTC
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTCTTTTACCTAAATCC
330290 ATCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGA
66 ATCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGA
*
330355 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTGTTTGATA
131 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTT-TTTGATA
* *
330401 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC-CTTTTACCTGAATCC
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTCTTTTACCTAAATCC
* * ** * *
330465 ATCATTTGGTGGATCATA-TTTTCCAGAGAAAGTTCAT-AATGAGAAGAACTCATCTGAAGAAGG
66 ATCATTTGATGGATCA-ACATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGG
330528 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTG
130 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTG
330570 TTTAAATTCA
Statistics
Matches: 154, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
172 4 0.03
173 4 0.03
174 59 0.38
175 38 0.25
176 49 0.32
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.29
Consensus pattern (174 bp):
TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTCTTTTACCTAAATCC
ATCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGATA
Found at i:330821 original size:113 final size:114
Alignment explanation
Indices: 330690--330970 Score: 413
Period size: 115 Copynumber: 2.5 Consensus size: 114
330680 TTGTTTGATA
* *
330690 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCA
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTAAATCCA
* * ** *
330755 TCATTTGGTGGATCATA-TTTTCCAGAGAAAGTTCAT-AATGAGAAGAAC
66 TCATTTGATGGATCA-ACATGGCCAAAGAAAGTTCATGAATGAGAAGAAC
* *** *
330803 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATTC
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC-CTTTTACCTAAATCC
330868 ATCATTTGATGGATCAACATGGCCAAAGAAAGTTCATGAATGAGAAGAAC
65 ATCATTTGATGGATCAACATGGCCAAAGAAAGTTCATGAATGAGAAGAAC
*
330918 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
330971 GTTTGATATC
Statistics
Matches: 151, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
113 49 0.32
114 42 0.28
115 60 0.40
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.28
Consensus pattern (114 bp):
TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTAAATCCA
TCATTTGATGGATCAACATGGCCAAAGAAAGTTCATGAATGAGAAGAAC
Found at i:330838 original size:174 final size:174
Alignment explanation
Indices: 330514--330858 Score: 516
Period size: 174 Copynumber: 2.0 Consensus size: 174
330504 TGAGAAGAAC
* *** *
330514 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGTTTAAATTC
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTCTTTTACCTAAATCC
330579 ATCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGA
66 ATCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGA
*
330644 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTGTTTGATA
131 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTT-TTTGATA
* *
330690 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC-CTTTTACCTGAATCC
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTCTTTTACCTAAATCC
* * ** * *
330754 ATCATTTGGTGGATCATA-TTTTCCAGAGAAAGTTCAT-AATGAGAAGAACTCATCTGAAGAAGG
66 ATCATTTGATGGATCA-ACATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGG
330817 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTG
130 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTG
330859 TTTAAATTCA
Statistics
Matches: 154, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
172 4 0.03
173 4 0.03
174 59 0.38
175 38 0.25
176 49 0.32
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.29
Consensus pattern (174 bp):
TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTCTTTTACCTAAATCC
ATCATTTGATGGATCAACATGGCCAAAGAAAATTCATGAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTTGATA
Found at i:331274 original size:3 final size:3
Alignment explanation
Indices: 331266--331390 Score: 214
Period size: 3 Copynumber: 41.7 Consensus size: 3
331256 TTTTTATCCA
331266 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
331314 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAA TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
331362 TAA TAT TAT TAT TAT TAT TTT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
331391 AATATATTAA
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 114 1.00
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:338832 original size:32 final size:30
Alignment explanation
Indices: 338795--338859 Score: 78
Period size: 32 Copynumber: 2.1 Consensus size: 30
338785 TTGACTATAT
*
338795 ATTCTTTTTGTATTGAA-TTTTATTCACTTTTA
1 ATTCTTTTT-TATAGAATTTTTA-T-ACTTTTA
*
338827 ATTCTTTTTTATAGCATTTTTATACTTTTA
1 ATTCTTTTTTATAGAATTTTTATACTTTTA
338857 ATT
1 ATT
338860 ACAATTGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 10 0.33
31 6 0.20
32 14 0.47
ACGTcount: A:0.23, C:0.09, G:0.05, T:0.63
Consensus pattern (30 bp):
ATTCTTTTTTATAGAATTTTTATACTTTTA
Found at i:338924 original size:21 final size:21
Alignment explanation
Indices: 338898--338955 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
338888 TCATTGTTTT
338898 TAAAAATCAATAAAAA-TGTAA
1 TAAAAATCAATAAAAAGTG-AA
*
338919 TAAAAAAT-AATTAAAAGTGAA
1 T-AAAAATCAATAAAAAGTGAA
*
338940 TAAAATTCAATAAAAA
1 TAAAAATCAATAAAAA
338956 CGTCAACTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 5 0.16
21 18 0.58
22 8 0.26
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.24
Consensus pattern (21 bp):
TAAAAATCAATAAAAAGTGAA
Found at i:339520 original size:22 final size:21
Alignment explanation
Indices: 339488--339528 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
339478 TATCATCTTA
*
339488 ACATAAATTAATTAAATATTAG
1 ACATAAATTAA-AAAATATTAG
*
339510 ACATAATTTAAAAAATATT
1 ACATAAATTAAAAAATATT
339529 TACAAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (21 bp):
ACATAAATTAAAAAATATTAG
Found at i:353380 original size:11 final size:11
Alignment explanation
Indices: 353349--353424 Score: 73
Period size: 11 Copynumber: 7.0 Consensus size: 11
353339 GAATATATTT
353349 ATTATAAAATA
1 ATTATAAAATA
* *
353360 AATATGAAATA
1 ATTATAAAATA
353371 ATTATAAAAT-
1 ATTATAAAATA
* *
353381 TTTATTAAATA
1 ATTATAAAATA
* *
353392 AATACAAAATA
1 ATTATAAAATA
*
353403 ATTATAAAATT
1 ATTATAAAATA
*
353414 ATTACAAAATA
1 ATTATAAAATA
353425 GTTGTTGAAG
Statistics
Matches: 49, Mismatches: 15, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
10 8 0.16
11 41 0.84
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.36
Consensus pattern (11 bp):
ATTATAAAATA
Found at i:353393 original size:32 final size:32
Alignment explanation
Indices: 353350--353424 Score: 105
Period size: 32 Copynumber: 2.3 Consensus size: 32
353340 AATATATTTA
**
353350 TTATAAAATAAATATGAAATAATTATAAAATT
1 TTATAAAATAAATACAAAATAATTATAAAATT
*
353382 TTATTAAATAAATACAAAATAATTATAAAATT
1 TTATAAAATAAATACAAAATAATTATAAAATT
*
353414 ATTACAAAATA
1 -TTATAAAATA
353425 GTTGTTGAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
32 29 0.78
33 8 0.22
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (32 bp):
TTATAAAATAAATACAAAATAATTATAAAATT
Found at i:358133 original size:16 final size:16
Alignment explanation
Indices: 358112--358161 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
358102 TCATCGGTCT
358112 AAATTATTCGAGTTTG
1 AAATTATTCGAGTTTG
*
358128 AAATTA---G-GTCT-
1 AAATTATTCGAGTTTG
358139 AAATTATTCGAGTTTG
1 AAATTATTCGAGTTTG
358155 AAATTAT
1 AAATTAT
358162 GATAAATTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 10
0.69 0.05 0.26
Matches are distributed among these distances:
11 6 0.22
12 3 0.11
13 1 0.04
14 1 0.04
15 3 0.11
16 13 0.48
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.42
Consensus pattern (16 bp):
AAATTATTCGAGTTTG
Found at i:358145 original size:27 final size:27
Alignment explanation
Indices: 358107--358160 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
358097 CCGGTTCATC
358107 GGTCTAAATTATTCGAGTTTGAAATTA
1 GGTCTAAATTATTCGAGTTTGAAATTA
358134 GGTCTAAATTATTCGAGTTTGAAATTA
1 GGTCTAAATTATTCGAGTTTGAAATTA
358161 TGATAAATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.41
Consensus pattern (27 bp):
GGTCTAAATTATTCGAGTTTGAAATTA
Found at i:362213 original size:26 final size:28
Alignment explanation
Indices: 362174--362229 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
362164 TTTTATAATA
362174 ATAAATATTTTATA-ATTT-AAAAAATT
1 ATAAATATTTTATATATTTGAAAAAATT
*
362200 ATAAA-ATTTATATATTTTTGAAAAAATT
1 ATAAATATTT-TATATATTTGAAAAAATT
362228 AT
1 AT
362230 TGAATAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 4 0.15
26 9 0.35
27 3 0.12
28 10 0.38
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (28 bp):
ATAAATATTTTATATATTTGAAAAAATT
Found at i:362700 original size:26 final size:28
Alignment explanation
Indices: 362655--362710 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 28
362645 TTAAAAGAAA
362655 ATAATTTTTTCAAAAATATATAAA-ATTT
1 ATAATTTTTTCAAAAATATA-AAATATTT
*
362683 ATAA-TTTTT-AAAATTATAAAATATTT
1 ATAATTTTTTCAAAAATATAAAATATTT
362709 AT
1 AT
362711 TATTATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 3 0.12
26 14 0.54
27 5 0.19
28 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (28 bp):
ATAATTTTTTCAAAAATATAAAATATTT
Found at i:362721 original size:26 final size:26
Alignment explanation
Indices: 362666--362722 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
362656 TAATTTTTTC
*
362666 AAAAA-TATATAAAATTTATAATTTT
1 AAAAATTATATAAAATTTATAATTAT
* *
362691 TAAAATTATA-AAATATTTATTATTAT
1 AAAAATTATATAAA-ATTTATAATTAT
362717 AAAAAT
1 AAAAAT
362723 AAACTTGTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 7 0.27
26 19 0.73
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
AAAAATTATATAAAATTTATAATTAT
Found at i:363806 original size:19 final size:19
Alignment explanation
Indices: 363766--363812 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
363756 TTATGTGTAT
*
363766 AATTTATTATTATAGTTATA
1 AATTT-TTATTATAATTATA
*
363786 AATTTTTATTATAATTTTA
1 AATTTTTATTATAATTATA
363805 AATATTTT
1 AAT-TTTT
363813 TTTAAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
AATTTTTATTATAATTATA
Found at i:364398 original size:2 final size:2
Alignment explanation
Indices: 364391--364417 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
364381 TTGTGTAGTG
364391 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
364418 TATGTAGTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:367337 original size:29 final size:29
Alignment explanation
Indices: 367273--367338 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
367263 TAAAATATAA
* * * *
367273 TTAATAATCGAGTGACCATTTTACAACTT
1 TTAATAGTCGAGAGACAAATTTACAACTT
*
367302 TTAATAGTCGAGAGACAAATTTATAACTT
1 TTAATAGTCGAGAGACAAATTTACAACTT
367331 TTAATAGT
1 TTAATAGT
367339 TAAGTGACTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (29 bp):
TTAATAGTCGAGAGACAAATTTACAACTT
Found at i:368047 original size:25 final size:27
Alignment explanation
Indices: 368020--368076 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 27
368010 ATGTCTGTTT
368020 TTCCAGTTTAGTGCCTAACGTTTATTTC
1 TTCCAGTTTAGTGCCTAACGTTTA-TTC
*
368048 GTTCCAGTTTGGTGCCTAACGTTTCATTC
1 -TTCCAGTTTAGTGCCTAACGTTT-ATTC
368077 CGTGACTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 25 0.96
30 1 0.04
ACGTcount: A:0.16, C:0.23, G:0.18, T:0.44
Consensus pattern (27 bp):
TTCCAGTTTAGTGCCTAACGTTTATTC
Found at i:368291 original size:156 final size:156
Alignment explanation
Indices: 368005--368316 Score: 588
Period size: 156 Copynumber: 2.0 Consensus size: 156
367995 AAAGATATCC
368005 AACCTATGTCTGTTTTTCCAGTTTAGTGCCTAACGTTTATTTCGTTCCAGTTTGGTGCCTAACGT
1 AACCTATGTCTGTTTTTCCAGTTTAGTGCCTAACGTTTATTTCGTTCCAGTTTGGTGCCTAACGT
* * *
368070 TTCATTCCGTGACTCAAAATGGGTCTAGCCGTGACTTACCGTTAAGTTTGACCATTAACCTATTA
66 TTCATTCCGTGACTCAAAATGGGTCTAGCCGTGACGTACCGTTAAGTTTAACCATTAACCCATTA
368135 AAAATGTCACTTGACATATTTTTTAG
131 AAAATGTCACTTGACATATTTTTTAG
*
368161 AACCTATGTCTGTTTTTCCAGTTTAGTGTCTAACGTTTATTTCGTTCCAGTTTGGTGCCTAACGT
1 AACCTATGTCTGTTTTTCCAGTTTAGTGCCTAACGTTTATTTCGTTCCAGTTTGGTGCCTAACGT
368226 TTCATTCCGTGACTCAAAATGGGTCTAGCCGTGACGTACCGTTAAGTTTAACCATTAACCCATTA
66 TTCATTCCGTGACTCAAAATGGGTCTAGCCGTGACGTACCGTTAAGTTTAACCATTAACCCATTA
368291 AAAATGTCACTTGACATATTTTTTAG
131 AAAATGTCACTTGACATATTTTTTAG
368317 GGTTAAGATG
Statistics
Matches: 152, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
156 152 1.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.39
Consensus pattern (156 bp):
AACCTATGTCTGTTTTTCCAGTTTAGTGCCTAACGTTTATTTCGTTCCAGTTTGGTGCCTAACGT
TTCATTCCGTGACTCAAAATGGGTCTAGCCGTGACGTACCGTTAAGTTTAACCATTAACCCATTA
AAAATGTCACTTGACATATTTTTTAG
Found at i:368361 original size:3 final size:3
Alignment explanation
Indices: 368353--368424 Score: 144
Period size: 3 Copynumber: 24.0 Consensus size: 3
368343 ACTTTTAGGG
368353 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC
368401 TCC TCC TCC TCC TCC TCC TCC TCC
1 TCC TCC TCC TCC TCC TCC TCC TCC
368425 ACCGTAATAT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (3 bp):
TCC
Found at i:368466 original size:3 final size:3
Alignment explanation
Indices: 368458--368516 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
368448 TGAAGACATC
368458 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
368506 TCT TCT TCT TC
1 TCT TCT TCT TC
368517 ACCGTAATAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:368576 original size:3 final size:3
Alignment explanation
Indices: 368570--368686 Score: 234
Period size: 3 Copynumber: 39.0 Consensus size: 3
368560 GAAGAAGACA
368570 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
368618 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
368666 TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC
368687 ACCGTAATAT
Statistics
Matches: 114, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 114 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:378951 original size:3 final size:3
Alignment explanation
Indices: 378943--378972 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
378933 TTCACACAGT
378943 TTA TTA TTA TTTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TT
378973 CATTCTGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:379710 original size:30 final size:31
Alignment explanation
Indices: 379653--379719 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
379643 AAAAATTTAA
* *
379653 AGTTTAGGTACGAAAACGAACTAAAACTGAT
1 AGTTTAAGTACGAAAACGAACTAAAACTAAT
*
379684 AGTTTAAGTACTAAAACGAA-TAAAACTAAT
1 AGTTTAAGTACGAAAACGAACTAAAACTAAT
379714 AGTTTA
1 AGTTTA
379720 GATATTAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 15 0.45
31 18 0.55
ACGTcount: A:0.48, C:0.10, G:0.15, T:0.27
Consensus pattern (31 bp):
AGTTTAAGTACGAAAACGAACTAAAACTAAT
Found at i:384541 original size:10 final size:10
Alignment explanation
Indices: 384526--384555 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
384516 AATAAATATA
384526 GTTTGTTCGT
1 GTTTGTTCGT
*
384536 GTTTGTTCAT
1 GTTTGTTCGT
384546 GTTTGTTCGT
1 GTTTGTTCGT
384556 TAAAATGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.03, C:0.10, G:0.27, T:0.60
Consensus pattern (10 bp):
GTTTGTTCGT
Found at i:384598 original size:24 final size:24
Alignment explanation
Indices: 384563--384620 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
384553 CGTTAAAATG
* *
384563 ATAAACGAACACAAACGAACGAAT
1 ATAAACGAACACAAACAAACGAAC
* *
384587 ATAAACGGACACAAATAAACGAAC
1 ATAAACGAACACAAACAAACGAAC
384611 ATAAACGAAC
1 ATAAACGAAC
384621 GAACATAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.59, C:0.21, G:0.12, T:0.09
Consensus pattern (24 bp):
ATAAACGAACACAAACAAACGAAC
Found at i:384626 original size:14 final size:14
Alignment explanation
Indices: 384566--384629 Score: 57
Period size: 14 Copynumber: 4.9 Consensus size: 14
384556 TAAAATGATA
*
384566 AACGAACACAAACG
1 AACGAACATAAACG
*
384580 AACGAATATAAACG
1 AACGAACATAAACG
*
384594 GAC--ACA-AATA--
1 AACGAACATAA-ACG
384604 AACGAACATAAACG
1 AACGAACATAAACG
384618 AACGAACATAAA
1 AACGAACATAAA
384630 ATTAATTGGA
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
10 2 0.05
11 2 0.05
12 7 0.18
13 2 0.05
14 26 0.67
ACGTcount: A:0.59, C:0.20, G:0.12, T:0.08
Consensus pattern (14 bp):
AACGAACATAAACG
Found at i:385309 original size:2 final size:2
Alignment explanation
Indices: 385298--385331 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
385288 TAGTTTAAAG
385298 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
385332 AGAAAGTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:385471 original size:27 final size:27
Alignment explanation
Indices: 385416--385472 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
385406 TTTGACAAAT
* *
385416 TATTTCACAACTGATTTAATTTTATAA
1 TATTTCACAACTGATTTAATTCTAAAA
*
385443 TATTTCACCACTGATTT-ATCTCTAAAA
1 TATTTCACAACTGATTTAAT-TCTAAAA
385470 TAT
1 TAT
385473 ATAAAATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 2 0.08
27 24 0.92
ACGTcount: A:0.35, C:0.16, G:0.04, T:0.46
Consensus pattern (27 bp):
TATTTCACAACTGATTTAATTCTAAAA
Done.