Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01010672.1 Corchorus olitorius cultivar O-4 contig10704, 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: 101706
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Found at i:17427 original size:3 final size:3
Alignment explanation
Indices: 17419--17446 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
17409 CGAGAGAGAT
17419 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
17447 TGGAGATGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:21722 original size:16 final size:17
Alignment explanation
Indices: 21690--21722 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
21680 GAAAAGTACG
21690 TGACATATATATAACTA
1 TGACATATATATAACTA
*
21707 TGACTTATAT-TAACTA
1 TGACATATATATAACTA
21723 ATACTAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.39
Consensus pattern (17 bp):
TGACATATATATAACTA
Found at i:28250 original size:95 final size:95
Alignment explanation
Indices: 28130--28321 Score: 384
Period size: 95 Copynumber: 2.0 Consensus size: 95
28120 TACCATTTCT
28130 CTTTTTCTTTTTTAGTTTGGGTTATTAATTAGACACATGTTGGAATATTGGTCAATAATCTTGAT
1 CTTTTTCTTTTTTAGTTTGGGTTATTAATTAGACACATGTTGGAATATTGGTCAATAATCTTGAT
28195 GATCTATACTATATTAAAAAGTACGTTCAC
66 GATCTATACTATATTAAAAAGTACGTTCAC
28225 CTTTTTCTTTTTTAGTTTGGGTTATTAATTAGACACATGTTGGAATATTGGTCAATAATCTTGAT
1 CTTTTTCTTTTTTAGTTTGGGTTATTAATTAGACACATGTTGGAATATTGGTCAATAATCTTGAT
28290 GATCTATACTATATTAAAAAGTACGTTCAC
66 GATCTATACTATATTAAAAAGTACGTTCAC
28320 CT
1 CT
28322 GTAAAACTTT
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 97 1.00
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (95 bp):
CTTTTTCTTTTTTAGTTTGGGTTATTAATTAGACACATGTTGGAATATTGGTCAATAATCTTGAT
GATCTATACTATATTAAAAAGTACGTTCAC
Found at i:28598 original size:14 final size:14
Alignment explanation
Indices: 28579--28610 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
28569 TTTTATAATT
28579 ATTTTATTTTTACC
1 ATTTTATTTTTACC
*
28593 ATTTTATTTTTACT
1 ATTTTATTTTTACC
28607 ATTT
1 ATTT
28611 CAATTCAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.69
Consensus pattern (14 bp):
ATTTTATTTTTACC
Found at i:30557 original size:18 final size:19
Alignment explanation
Indices: 30530--30565 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
30520 TTCATCTATC
30530 TTTTACG-AAACTTTCATG
1 TTTTACGAAAACTTTCATG
*
30548 TTTTAGGAAAACTTTCAT
1 TTTTACGAAAACTTTCAT
30566 CTTTGAAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (19 bp):
TTTTACGAAAACTTTCATG
Found at i:30636 original size:38 final size:34
Alignment explanation
Indices: 30556--30637 Score: 92
Period size: 34 Copynumber: 2.3 Consensus size: 34
30546 TGTTTTAGGA
* **
30556 AAACTTTCATCTTTGAAGCAACTCTTTAACTCTG
1 AAACTTTCATCTTTAAAGCAACTCTGAAACTCTG
*
30590 AGACTTTCATCTTTAAAGCAACTCTCCGAAACTCTCTG
1 AAACTTTCATCTTTAAAGCAACTCT--GAAA--CTCTG
30628 AAACTTTCAT
1 AAACTTTCAT
30638 GACTTTTTCC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
34 23 0.59
36 2 0.05
38 14 0.36
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.35
Consensus pattern (34 bp):
AAACTTTCATCTTTAAAGCAACTCTGAAACTCTG
Found at i:31015 original size:19 final size:20
Alignment explanation
Indices: 30967--31027 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
30957 ATCGCTGCTC
* *
30967 TAATAATTTCATATGTACAG
1 TAATAATCTAATATGTACAG
30987 TACATAATCTAATATGTACAG
1 TA-ATAATCTAATATGTACAG
* * *
31008 T-GTAATCTCATCTGTACAG
1 TAATAATCTAATATGTACAG
31027 T
1 T
31028 TGCTAAACAG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
19 16 0.46
20 2 0.06
21 17 0.49
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (20 bp):
TAATAATCTAATATGTACAG
Found at i:31160 original size:62 final size:62
Alignment explanation
Indices: 31063--31184 Score: 235
Period size: 62 Copynumber: 2.0 Consensus size: 62
31053 TACCGCACCA
31063 CTCTACTAAACGAAACCTAAGTCATTGGATGAAATTGAAATGATGTGATAAAATTTTTCATG
1 CTCTACTAAACGAAACCTAAGTCATTGGATGAAATTGAAATGATGTGATAAAATTTTTCATG
*
31125 CTCTACTAAACGAAGCCTAAGTCATTGGATGAAATTGAAATGATGTGATAAAATTTTTCA
1 CTCTACTAAACGAAACCTAAGTCATTGGATGAAATTGAAATGATGTGATAAAATTTTTCA
31185 CGTGGTAATT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (62 bp):
CTCTACTAAACGAAACCTAAGTCATTGGATGAAATTGAAATGATGTGATAAAATTTTTCATG
Found at i:36052 original size:17 final size:17
Alignment explanation
Indices: 36030--36065 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
36020 GCCACGTGGC
36030 TTTCTTTC-TCTTTTTCT
1 TTTCTTTCAT-TTTTTCT
36047 TTTCTTTCATTTTTTCT
1 TTTCTTTCATTTTTTCT
36064 TT
1 TT
36066 CATTTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.94
18 1 0.06
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTCTTTCATTTTTTCT
Found at i:36061 original size:12 final size:12
Alignment explanation
Indices: 36046--36073 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
36036 TCTCTTTTTC
36046 TTTTCTTTCATT
1 TTTTCTTTCATT
36058 TTTTCTTTCATT
1 TTTTCTTTCATT
36070 TTTT
1 TTTT
36074 ATTGTCTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTCTTTCATT
Found at i:36380 original size:2 final size:2
Alignment explanation
Indices: 36361--36402 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
36351 AAAAAGTTAC
* *
36361 AT AT AC AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36402 A
1 A
36403 CTCAACACCC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:39012 original size:2 final size:2
Alignment explanation
Indices: 39005--39043 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
38995 TCAATGGTAG
39005 AT AT AT AT AT 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 AT AT A
39044 AAGCAAAGTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:39455 original size:16 final size:16
Alignment explanation
Indices: 39423--39460 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
39413 ATAGATATGC
39423 ATAA-AATTGCTAGAT
1 ATAACAATTGCTAGAT
* *
39438 ATAACAATTGTTATAT
1 ATAACAATTGCTAGAT
39454 ATAACAA
1 ATAACAA
39461 GCAATGAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.34
Consensus pattern (16 bp):
ATAACAATTGCTAGAT
Found at i:42895 original size:26 final size:26
Alignment explanation
Indices: 42857--42908 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
42847 GACAATTGCT
42857 CTATTAGCAGCACACATCGGCTGACA
1 CTATTAGCAGCACACATCGGCTGACA
* *
42883 CTATTAGCTGCACACATTGGCTGACA
1 CTATTAGCAGCACACATCGGCTGACA
42909 ATAGTTAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (26 bp):
CTATTAGCAGCACACATCGGCTGACA
Found at i:48923 original size:21 final size:21
Alignment explanation
Indices: 48898--48942 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
48888 CACCAGTTTG
*
48898 TCAACTTCGTCACCATTTTCA
1 TCAACCTCGTCACCATTTTCA
* *
48919 TCAACCTCGTCGCCTTTTTCA
1 TCAACCTCGTCACCATTTTCA
48940 TCA
1 TCA
48943 CTCTCATCCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.36, G:0.07, T:0.38
Consensus pattern (21 bp):
TCAACCTCGTCACCATTTTCA
Found at i:50289 original size:31 final size:31
Alignment explanation
Indices: 50245--50394 Score: 167
Period size: 31 Copynumber: 4.9 Consensus size: 31
50235 ACGGTGTCCG
* *
50245 ATGTGGCATGCCATGTGTACCAAAAAGCGAC
1 ATGTGGCACGCCATGTGTACCAAAAAACGAC
* *
50276 ATATGGCACGCCATGTGCACCAAAAAACGAC
1 ATGTGGCACGCCATGTGTACCAAAAAACGAC
* ** *
50307 ATGTGACACGCCACATGTACCAAAAATCGAC
1 ATGTGGCACGCCATGTGTACCAAAAAACGAC
* ** * *
50338 ACGTGGCACGCCACATTTACCAAAAAATGAC
1 ATGTGGCACGCCATGTGTACCAAAAAACGAC
*
50369 ATGTGTCACGCCATGTGTA-CAAAAAA
1 ATGTGGCACGCCATGTGTACCAAAAAA
50395 GTGACACGTG
Statistics
Matches: 99, Mismatches: 20, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
30 7 0.07
31 92 0.93
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.17
Consensus pattern (31 bp):
ATGTGGCACGCCATGTGTACCAAAAAACGAC
Found at i:63412 original size:18 final size:18
Alignment explanation
Indices: 63389--63439 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
63379 ATTGAACCCT
63389 GACTAATCCGGAGTCCCC
1 GACTAATCCGGAGTCCCC
*
63407 GACTAATCCGGAGTCCCT
1 GACTAATCCGGAGTCCCC
*
63425 GACTAATCCAGAGTC
1 GACTAATCCGGAGTC
63440 GAGTGCCATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.25, C:0.33, G:0.22, T:0.20
Consensus pattern (18 bp):
GACTAATCCGGAGTCCCC
Found at i:63491 original size:52 final size:51
Alignment explanation
Indices: 63407--63524 Score: 173
Period size: 52 Copynumber: 2.3 Consensus size: 51
63397 CGGAGTCCCC
* * *
63407 GACTAATCCGGAGTCCCTGACTAATCCAGAGTCGAGTGCCATATTGAACCCT
1 GACTAATCCGGAGTCCCCGACTAATCCAGAGTCAAGTGCCATAATGAA-CCT
* * *
63459 GGCTACTCCGGAGTCCCCGACTAATCCGGAGTCAAGTGCCATAATGAACCT
1 GACTAATCCGGAGTCCCCGACTAATCCAGAGTCAAGTGCCATAATGAACCT
63510 GACTAATCCGGAGTC
1 GACTAATCCGGAGTC
63525 AAGTGCCTCT
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
51 16 0.28
52 42 0.72
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (51 bp):
GACTAATCCGGAGTCCCCGACTAATCCAGAGTCAAGTGCCATAATGAACCT
Found at i:69756 original size:16 final size:16
Alignment explanation
Indices: 69735--69767 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
69725 TTCTTCATTT
69735 ATCTTCAAAGGGGAGG
1 ATCTTCAAAGGGGAGG
69751 ATCTTCAAAGGGGAGG
1 ATCTTCAAAGGGGAGG
69767 A
1 A
69768 ATATAGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.12, G:0.36, T:0.18
Consensus pattern (16 bp):
ATCTTCAAAGGGGAGG
Found at i:73418 original size:33 final size:33
Alignment explanation
Indices: 73373--73534 Score: 258
Period size: 33 Copynumber: 5.0 Consensus size: 33
73363 TGTTTCAAAA
* * *
73373 GACGTCTCATTGATTTCTCCTCATCAGCTTTGC
1 GACGTCTTAATGATTCCTCCTCATCAGCTTTGC
*
73406 GACGTCTTATTGATTCCTCCTCATCAGCTTTGC
1 GACGTCTTAATGATTCCTCCTCATCAGCTTTGC
73439 GACGTCTTAATGATTCCT-C-C-TCAGCTTTGC
1 GACGTCTTAATGATTCCTCCTCATCAGCTTTGC
*
73469 GACGTCTTAATGATTCCTCCTCTTCAGCTTTGC
1 GACGTCTTAATGATTCCTCCTCATCAGCTTTGC
73502 GACGTCTTAATGATTCCTCCTCATCAGCTTTGC
1 GACGTCTTAATGATTCCTCCTCATCAGCTTTGC
73535 ACTTCTCCTT
Statistics
Matches: 122, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
30 28 0.23
31 2 0.02
32 2 0.02
33 90 0.74
ACGTcount: A:0.16, C:0.30, G:0.15, T:0.38
Consensus pattern (33 bp):
GACGTCTTAATGATTCCTCCTCATCAGCTTTGC
Found at i:73475 original size:63 final size:63
Alignment explanation
Indices: 73390--73524 Score: 243
Period size: 63 Copynumber: 2.1 Consensus size: 63
73380 CATTGATTTC
* *
73390 TCCTCATCAGCTTTGCGACGTCTTATTGATTCCTCCTCATCAGCTTTGCGACGTCTTAATGAT
1 TCCTCCTCAGCTTTGCGACGTCTTAATGATTCCTCCTCATCAGCTTTGCGACGTCTTAATGAT
*
73453 TCCTCCTCAGCTTTGCGACGTCTTAATGATTCCTCCTCTTCAGCTTTGCGACGTCTTAATGAT
1 TCCTCCTCAGCTTTGCGACGTCTTAATGATTCCTCCTCATCAGCTTTGCGACGTCTTAATGAT
73516 TCCTCCTCA
1 TCCTCCTCA
73525 TCAGCTTTGC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
63 69 1.00
ACGTcount: A:0.16, C:0.31, G:0.15, T:0.38
Consensus pattern (63 bp):
TCCTCCTCAGCTTTGCGACGTCTTAATGATTCCTCCTCATCAGCTTTGCGACGTCTTAATGAT
Found at i:79373 original size:2 final size:2
Alignment explanation
Indices: 79366--79395 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
79356 CATTTCTTAG
79366 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
79396 GTGTGTGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:83658 original size:22 final size:22
Alignment explanation
Indices: 83633--83684 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 22
83623 ATATTGATAG
83633 AGAATAAAATTAATCTAAAATA
1 AGAATAAAATTAATCTAAAATA
83655 AG---AAAA-TAA-CTAAAATA
1 AGAATAAAATTAATCTAAAATA
*
83672 A-AATAAACTTAAT
1 AGAATAAAATTAAT
83685 TATAGTCCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 11
0.67 0.03 0.31
Matches are distributed among these distances:
17 9 0.38
18 3 0.12
19 7 0.29
20 3 0.12
22 2 0.08
ACGTcount: A:0.65, C:0.06, G:0.04, T:0.25
Consensus pattern (22 bp):
AGAATAAAATTAATCTAAAATA
Found at i:86199 original size:17 final size:16
Alignment explanation
Indices: 86179--86224 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 16
86169 TTTACTTCTA
*
86179 ATAATTATTTTTAGATT
1 ATAATTATATTTA-ATT
86196 ATAATATATATTTAATT
1 ATAAT-TATATTTAATT
86213 ATAATTAATATT
1 ATAATT-ATATT
86225 ATTATTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 1 0.04
17 18 0.69
18 7 0.27
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (16 bp):
ATAATTATATTTAATT
Found at i:87144 original size:329 final size:325
Alignment explanation
Indices: 86463--90374 Score: 1590
Period size: 329 Copynumber: 11.8 Consensus size: 325
86453 GGGGATCCGA
* * * *
86463 CTCAATTTTGCATGATTTTTTGACT-CCGAGACTACTTGAAATATCTATGTTCATCTAAATTAAA
1 CTCAGTTTTGCATGA-TTTTTG-GTGCC-AGACTCCTTGAAATATCTATATTCATCT-AA-TAAA
* * * * *
86527 TCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATTTGAATCTTGTTTTGATTTGATTA
61 ACTTAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATTTGAATCTTGTTTCGATTTAATTA
* * * * * *
86592 GAAATTATTTTGAAAAAATAAGAAAAC-ACTATTAGAAA-CGTCAAAA-ACCGTTCAATTTTTTT
126 GAAATTA-ATTCAAAAAATATGAAAACGA-TATTA-AAAGCGTGAAAAGTCC-TTCAATCTTTTT
* *
86654 GGCGTTGAATTATATATTTTTTATGAGTATTTTAGCAAAAAATTGAGGAAATATCTTTCAGGTCA
187 GGAGTTGAATTATATA-TTTTTATGAGTATTTTAGCAAAAAATTGAGGAAAAATCTTTCAGGTCA
*
86719 ATTTTTACAAAATTTTAGACAAAATCATGTAATAACCATCACGGTTTTTAGCTAAAAAAGTGTTC
251 ATTTTTACAAAATTTAAGACAAAATCATGTAATAACCATCACGGTTTTTAGCTAAAAAAGTGTTC
*
86784 TGGCCCCCGG
316 TGGCCCCCAG
*
86794 CTCAGTTTTGCATGATTTTTGGTGCCAAGACTCCTTGAGATAT-TCATATTCATCTAATCAAAAC
1 CTCAGTTTTGCATGATTTTTGGTGCC-AGACTCCTTGAAATATCT-ATATTCATCTAAT-AAAAC
* *
86858 TTAGCCACATTGGATTTAAGAATTTGTTTTTA-AATGCATTTGAATCTTGTTTCGATTTAATTGG
63 TTAGCCACATTGGATTTAAGAATTTGTTTTTACGA-GCATTTGAATCTTGTTTCGATTTAATTAG
* * * *
86922 ATATTAATTCAGAAAATATGAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGGAAT
127 AAATTAATTCAAAAAATATGAAAACGATATTAAAAGCGTGAAAAGTCCTTCAATCTTTTTGGAGT
* * * * * ** *
86987 T-ACATTATTTATATTTTATGAGTGTTTTATCCAAAATTTGAGGAAAAAAT-TTTTGGGTCATTT
192 TGA-ATTATATAT-TTTTATGAGTATTTTAGCAAAAAATTGAGG-AAAAATCTTTCAGGTCAATT
* * * * * *
87050 TTTGCAAAATTTAAGGCAAAATCATGTACTAACCATCATGGTTTTTGGCTAAAATCACGT-TTCG
254 TTTACAAAATTTAAGACAAAATCATGTAATAACCATCACGGTTTTTAGCTAAAA--AAGTGTTC-
*
87114 TGG-CCTCAG
316 TGGCCCCCAG
* * *
87123 CTCAGTTTTGCATGATTTTTGGCGCCGGAACTCCTTGAAATATCTGTATTCATCTAATAAAATCT
1 CTCAGTTTTGCATGATTTTTGGTGCCAG-ACTCCTTGAAATATCTATATTCATCTAATAAAA-CT
* * * * *
87188 TAGCCAAATTGCATTTAA-AGATTTATTTTTACGAGCATCTGAATCTTGTTTCGATTCAATTAGA
64 TAGCCACATTGGATTTAAGA-ATTTGTTTTTACGAGCATTTGAATCTTGTTTCGATTTAATTAGA
*
87252 AATTACTTCTGAAAAAATATGAAATACGATATTAAAAGCGTGAAAAGTCCTTCAATCTTTTTGGA
128 AATTAATTC--AAAAAATATGAAA-ACGATATTAAAAGCGTGAAAAGTCCTTCAATCTTTTTGGA
* * * *
87317 GTTGAATTATATATTTTTAATGAGTATTATGGC------TTGAGGAAATATCTTTCGGGTCAATT
190 GTTGAATTATATATTTTT-ATGAGTATTTTAGCAAAAAATTGAGGAAAAATCTTTCAGGTCAATT
* * * ** * * ** * *
87376 TTTGCAAAATTTTAGCCAAAATTGTGTAA-CATCATCACAATTTTTTA-CTAAAAACGCGTT-TC
254 TTTACAAAATTTAAGACAAAATCATGTAATAACCATCAC-GGTTTTTAGCTAAAAAAGTGTTCT-
** **
87438 GGGGCCTGG
317 GGCCCCCAG
* * * * *
87447 TTCAATTTTGAATTATTTTTGGTGCTGAGACTCCTTGAAATATCTATATTCATCTAA-ACAAA--
1 CTCAGTTTTGCATGATTTTTGGTGC-CAGACTCCTTGAAATATCTATATTCATCTAATA-AAACT
** * * * * * *
87509 T--CC-C---------AACCA-TTGTTTCTACAAGCATCTGAATCATGTTTCGTTTTAATTAAAA
64 TAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATTTGAATCTTGTTTCGATTTAATTAGAA
* * * * * *
87561 ATTAATTTGGAAAAAAATAGGAAAAACGATATTAGAAGCGTGACAAGCCCTTCAATCTTTTTGGC
129 ATTAA-TT--CAAAAAATATG-AAAACGATATTAAAAGCGTGAAAAGTCCTTCAATCTTTTTGGA
* * * * *
87626 GTTGAATTATATATATATATATGTGTGTGTGTGTATGTATATATATTATGAGTATTGTAGCAAAA
190 GTTGAATTATATAT-T-TTTATGAGTAT-T-T-TA-G--CA-A-A--A--A--ATTG-AG-GAAA
* * * * * *
87691 AAT-TGAGAAAATATCTTTTTGGTCAATTTTTGCAAAAAAATTT-AGTCGAAATCTTGTAATAAT
237 AATCT-------T-TC----AGGTCAATTTTTACAAA---ATTTAAGACAAAATCATGTAATAAC
* * *
87754 CATCACGGTTTTTTTTTTAGCAAAAAAAATCACGATTTTTGGCTAAACACACGTTCCAGG
287 CATCACGG-----TTTTTAGCTAAAAAAGT---G--TTCTGG-----C-C-C---CCA-G
* * * *
87814 ACCCCGGGTCAGTTTTGCATTATTTTTGGTGCTAAGACTCCTTGAGATATCCATATTCATCTAAT
1 ----C---TCAGTTTTGCATGATTTTTGGTGC-CAGACTCCTTGAAATATCTATATTCATCTAAT
* * * *
87879 CAAATCTTAGCCACATTGCATTCAATG-ATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTT
58 -AAAACTTAGCCACATTGGATTTAA-GAATTTGTTTTTACGAGCATTTGAATCTTGTTTCGATTT
* *
87943 AATTAGAAATTAATTC-----ATA--AAAA--ATATGAAAAGCGTGAAAAGTCCTCCAATCTTTT
121 AATTAGAAATTAATTCAAAAAATATGAAAACGATATTAAAAGCGTGAAAAGTCCTTCAATCTTTT
* * * * *
87999 TGGTGTTGAATTATATATATATTCCATGAGTATTTTAG-ACAAAATTGAAGAAAAAT-TTTTATG
186 TGGAGTTGAATTATATAT-T-TT-TATGAGTATTTTAGCAAAAAATTGAGGAAAAATCTTTCA-G
* * * * * * * * * *
88062 GTCATTTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAATCATCACTGTTTTTTTTTTTGCTAA
247 GTCA-ATTTTTACAAAATTTAAGACAAAATCATGTAATAACCATCAC-G----GTTTTTAGCTAA
** * * *
88127 AAGTGCGTTTCGGCCTCGGGGCCCCAA
306 AAAAGTG-TT----CT--GGCCCCCAG
* *
88154 CTCAGTTTTGCATGATTTTTGGCGTCGAGACTCCTTGAAATATCTATATTCATC---T--AAC--
1 CTCAGTTTTGCATGATTTTTGGTG-CCAGACTCCTTGAAATATCTATATTCATCTAATAAAACTT
* * * * * *
88212 AACCACATTGCATTTAATG-ATTTGTTTTTACGAGCATCTCAATCGTGTTTTGATTTAATTAGAA
65 AGCCACATTGGATTTAA-GAATTTGTTTTTACGAGCATTTGAATCTTGTTTCGATTTAATTAGAA
*
88276 ATTAATTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGGAGT
129 ATTAATTCA-AAAAATATG-AAAACGATATTAAAAGCGTGAAAAGTCCTTCAATCTTTTTGGAGT
* **
88341 TGAATTATATA-TTTTATGAGTATTTTAG-ACAAAAATTGAGGAAAAATATTTTTGGTCAATTTT
192 TGAATTATATATTTTTATGAGTATTTTAGCA-AAAAATTGAGGAAAAATCTTTCAGGTCAATTTT
* * * * * * *
88404 TGCAAAATATT-AGCCGAAATCGTGAATGCTAGTCAA-GATCACAGTTTTTTTTTTGGCTAAAAA
256 TACAAAAT-TTAAGACAAAATC----ATG-TAAT-AACCATCAC-G----GTTTTTAGCTAAAAA
* ** * *
88467 CGCATTCCGGGCCCC-G
309 AGTGTTCTGGCCCCCAG
* * *
88483 ATTCAGTGTTGCATGATTTTTGGCGCCGAGACTCCTTG--------A-A---A--T-AT----C-
1 -CTCAGTTTTGCATGATTTTTGGTGCC-AGACTCCTTGAAATATCTATATTCATCTAATAAAACT
* * *** * * * *
88528 -AGCCACATTAGATTTGAGAATTTG-TAAAACAAGCATTTGAATCATGTTTTGATTTAATTAAAA
64 TAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATTTGAATCTTGTTTCGATTTAATTAGAA
* * * * * * *
88591 ATTAATTCGGAAAATAATATGAAAAACGTTATTAGAAGCATGGAAAGCCCTTAAATCTTTTTGGC
129 ATTAATTC--AAAA-AATATG-AAAACGATATTAAAAGCGTGAAAAGTCCTTCAATCTTTTTGGA
* * **
88656 GTTGAATTATATAATTTTTATGAGTATTGT-GCCTAAAAATTGAGGAAATAA-CTTTCAAATTTT
190 GTTGAATTATAT-ATTTTTATGAGTATTTTAG-CAAAAAATTGAGGAAA-AATCTTTC--A-GGT
*** * * * ** * * * * * * *
88719 TTTTTTTTGCAAAATTCT-A-ACTGAATTTGTGTAATAATCATCATGATTTTTTGGTTAAAGACG
249 CAATTTTTACAAAATT-TAAGAC-AAAATCATGTAATAACCATCACG-GTTTTTAGCTAAAAAAG
* * * *
88782 CGTTCGGGAGCCCCGG
311 TGTTCTGG-CCCCCAG
* * * * * * * * *
88798 CTAAGTTTTGCATGATTTTTGGCGCCAAGAATCTTTGAGATATCCATATTCACCTAAGCAAATCT
1 CTCAGTTTTGCATGATTTTTGGTGCC-AGACTCCTTGAAATATCTATATTCATCTAA-TAAAACT
* * * * * *
88863 CAGCTACATTGGATTTAAGAATTTATTTTTACGAGCATCTGAATCAT-TTTCTATTTAATTAGAA
64 TAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATTTGAATCTTGTTTCGATTTAATTAGAA
* * * * * * **
88927 ATAAATTTAGAAAAATATGAAAAACAATATTAAAAGCATGCAAAGTCCTCCAATCTTTTTTCCA-
129 ATTAATTCA-AAAAATATG-AAAACGATATTAAAAGCGTGAAAAGTCCTTCAATC-TTTTTGGAG
* * * * * * *
88991 TTGAATTATATAAATTTTATGAGTATTTAAGCCATAAATTGACGGAAAAATTTTTCGGGTCATTT
191 TTGAATTATAT-ATTTTTATGAGTATTTTAGCAAAAAATTGA-GGAAAAATCTTTCAGGTCAATT
* *** * * * * *
89056 TTTGCAAAATTTCAA-TTGAAATCGTGTACTAACCGTCACAGTTTTTTTTTTTTAGGCTAAAAAC
254 TTTACAAAATTT-AAGACAAAATCATGTAATAACCATCAC-G------GTTTTTA-GCTAAAAAA
* * *
89120 GCGTT-TCGGGCCCCGG
310 GTGTTCT-GGCCCCCAG
* * * * *
89136 CTTAGTTTTGCATGATTTTTGGATCCCAGAGATCCTAGAAATATCTATATTCATATAATAATATA
1 CTCAGTTTTGCATGATTTTTGG-TGCCAGA-CTCCTTGAAATATCTATATTCATCTAATAA-A-A
* ** **
89201 -TCAGCCACATTAAATTTAATG-A-TT-TTTTTACGAGCACCTGAATCTTGTTTCGATTTAATTA
62 CTTAGCCACATTGGATTTAA-GAATTTGTTTTTACGAGCATTTGAATCTTGTTTCGATTTAATTA
* * *
89262 -AAATTAATTTAGAAAAATATGAAAAGTGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTT-G
126 GAAATTAATTCA-AAAAATATGAAAA-CGATATTAAAAGCGTGAAAAGTCCTTCAATCTTTTTGG
* * * * *
89325 ACGTTGAATTATATATATTTTATGAGTATTGTGGCTAAAAATTGTA-GAAAAATATTTC-GGTTA
189 A-GTTGAATTATATAT-TTTTATGAGTATTTTAGCAAAAAATTG-AGGAAAAATCTTTCAGG-TC
* * * * * *** ***** * * *
89388 AATTTTTGCAAAATTTTAGCCGAAATCTTGTACCATCAAGGTTTTTTTTTTTTAACTAAAAACGC
250 AATTTTTACAAAATTTAAGACAAAATCATGTA--AT-AACCATCACGGTTTTTAGCTAAAAAAGT
* * *
89453 GATCTGAG-GCCCTG
312 GTTCTG-GCCCCCAG
* * * * * *
89467 TGTCAGTTTTGCATGATTTTTGGCGTCAAGACTCCTTAAAATATATTTATATTCATCTAACCAAA
1 -CTCAGTTTTGCATGATTTTTGGTG-CCAGACTCCTT-GAA-ATATCTATATTCATCTAA-TAAA
* * ** * * * * *
89532 TCTCAGCCACATTATATTTAAGGATTTGTTTTTACGAG-TTTCTAAATCTTTTTTCGATTTAATC
61 ACTTAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATT-TGAATCTTGTTTCGATTTAATT
* * * * *
89596 AGAAATTAATTTGGAAATAAAAATATGAAAAACGATATTAGAATCGTGAAAAAAG-CTTTCAATT
125 AGAAATTAA-TT---CA-AAAAATATG-AAAACGATATTAAAAGCGTG--AAAAGTCCTTCAATC
* * * *
89660 TTTTTGGCA-TTGAATTATATATTTTTTATGATTATTTTCGCTAGAAATCT-AGGAAAAGA-CTT
182 TTTTTGG-AGTTGAATTATATA-TTTTTATGAGTATTTTAGCAAAAAAT-TGAGGAAAA-ATCTT
* * * * * * * * ** *
89722 TCAGGTTAATTTTTACAAAATTTTAGCCAAAATCTTATACTAACTATCACGATTTTCGGCTAAGA
243 TCAGGTCAATTTTTACAAAATTTAAGACAAAATCATGTAATAACCATCACGGTTTTTAGCTAAAA
* * * *
89787 ACGCGTTC-CGCGGCCCAG
308 AAGTGTTCTGGC-CCCCAG
* * *
89805 CTCAATTTTGCATGATTTTTTGTGCCAAGACTCCTT---A-A-C------CA---AAT----CTC
1 CTCAGTTTTGCATGATTTTTGGTGCC-AGACTCCTTGAAATATCTATATTCATCTAATAAAACTT
* * * *
89852 AGACACATTAGATTTAA-AGATTTGTTTTTACGAGCATCTGAATCTTGTCTCGATTTAATTAGAA
65 AGCCACATTGGATTTAAGA-ATTTGTTTTTACGAGCATTTGAATCTTGTTTCGATTTAATTAGAA
* * * * * **
89916 ATTAATTCAGATAAAATAGGAAAAACAATATTAGAAGCGTTAAAAGCCCTTCAATCTTTTTTTAT
129 ATTAATTCA-A-AAAATATG-AAAACGATATTAAAAGCGTGAAAAGTCCTTCAATCTTTTTGGA-
* * * * *
89981 GTCGAACTATATATTTTTTTATGAGTATTCTAGCCAAAAATTGAGGAAATATCTTTC-GGATCAA
190 GTTGAA-T-TATATATTTTTATGAGTATTTTAGCAAAAAATTGAGGAAAAATCTTTCAGG-TCAA
* * * * * * * * * *
90045 TTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACTGTTTTTGGCTAAAAATGCGTTCC
252 TTTTTACAAAATTTAAGACAAAATCATGTAATAACCATCACGGTTTTTAGCTAAAAAAGTGTT-C
* * *
90110 AGGGCCAC-G
316 TGGCCCCCAG
** * * * *
90119 ACTCAGTTTTGCATTCTTTTTGGCGCCGAGTCTCCTT-AAATTATCTTTATTCATCTAATCAAAT
1 -CTCAGTTTTGCATGATTTTTGGTGCC-AGACTCCTTGAAA-TATCTATATTCATCTAAT-AAAA
* * * * * * * *
90183 CTCAGCCACATTGGATTGAAGGATATGTTTTTATGTGCATCTGAATCTTGTTTTGATTTAATTAG
62 CTTAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATTTGAATCTTGTTTCGATTTAATTAG
* ** * *
90248 AAATTAATTCTGAAAAATATGAAAAGCGATATTAAAAGTTTGAAAAATCCTTCAAT-TTTTTGGC
127 AAATTAATTC-AAAAAATATGAAAA-CGATATTAAAAGCGTGAAAAGTCCTTCAATCTTTTTGGA
* * * *
90312 GTTGAAGTATATATATTTTATGAGTATTTTTGCCAGAAAAA-TGACGAAAAATCTTTCGGGTCA
190 GTTGAATTATATAT-TTTTATGAGTATTTTAG-CA-AAAAATTGAGGAAAAATCTTTCAGGTCA
90375 TGTTTAACAG
Statistics
Matches: 2791, Mismatches: 486, Indels: 608
0.72 0.13 0.16
Matches are distributed among these distances:
308 40 0.01
309 64 0.02
310 10 0.00
311 9 0.00
312 14 0.01
313 55 0.02
314 127 0.05
315 80 0.03
316 86 0.03
317 64 0.02
318 6 0.00
319 34 0.01
320 3 0.00
321 6 0.00
322 22 0.01
323 7 0.00
324 56 0.02
325 85 0.03
326 49 0.02
327 7 0.00
328 141 0.05
329 207 0.07
330 97 0.03
331 82 0.03
332 185 0.07
333 139 0.05
334 154 0.06
335 52 0.02
336 149 0.05
337 175 0.06
338 83 0.03
339 61 0.02
340 25 0.01
341 90 0.03
342 11 0.00
343 17 0.01
344 1 0.00
345 16 0.01
346 13 0.00
348 4 0.00
349 35 0.01
350 12 0.00
351 18 0.01
353 1 0.00
354 2 0.00
356 4 0.00
357 1 0.00
361 7 0.00
362 1 0.00
363 5 0.00
365 1 0.00
366 1 0.00
367 2 0.00
369 1 0.00
371 1 0.00
374 52 0.02
375 4 0.00
376 2 0.00
377 51 0.02
378 6 0.00
379 6 0.00
380 1 0.00
382 3 0.00
389 5 0.00
390 43 0.02
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (325 bp):
CTCAGTTTTGCATGATTTTTGGTGCCAGACTCCTTGAAATATCTATATTCATCTAATAAAACTTA
GCCACATTGGATTTAAGAATTTGTTTTTACGAGCATTTGAATCTTGTTTCGATTTAATTAGAAAT
TAATTCAAAAAATATGAAAACGATATTAAAAGCGTGAAAAGTCCTTCAATCTTTTTGGAGTTGAA
TTATATATTTTTATGAGTATTTTAGCAAAAAATTGAGGAAAAATCTTTCAGGTCAATTTTTACAA
AATTTAAGACAAAATCATGTAATAACCATCACGGTTTTTAGCTAAAAAAGTGTTCTGGCCCCCAG
Found at i:89440 original size:337 final size:328
Alignment explanation
Indices: 88765--90340 Score: 1068
Period size: 337 Copynumber: 4.8 Consensus size: 328
88755 ATCATCATGA
* *
88765 TTTTTT-GGTTAAAGACGCGTTCGGGAGCCCCGGCTAAGTTTTGCATGATTTTTGGCGCCA-AGA
1 TTTTTTAGGCTAAAAACGCGTTCGGG-GCCCCGGCTAAGTTTTGCATGATTTTTGGC-CCAGAG-
* * * * * * * **
88828 ATCTTTGAGATATCCATATTCACCTAAGCAAATCTCAGCTACATTGGATTTAAGAATTTATTTTT
63 ATCCTAGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTAAATTTAAG-ATTTATTTTT
* * * *
88893 ACGAGCATCTGAATCATTTTCTATTTAATTAGAAATAAATTTAGAAAAATATGAAAAACAATATT
127 ACGAGCATCTGAATCTTTTTCGATTTAATTAGAAATTAATTTAGAAAAATATGAAAAACGATATT
* * ** *
88958 AAAAGCATGCAAAGTCCTCCAATCTTTTTTCCATTGAATTATATAAATTTTATGAGTATTTAAGC
192 AAAAGCGTGAAAAGTCCTCCAATCTTTTTGACATTGAATTATATATATTTTATGAGTATTT-AGC
* * * * * * *** *
89023 CATAAATTG-ACGGAAAAATTTTTCGGGTCATTTTTTGCAAAATTTCAATTGAAATCGTGTACTA
256 TAAAAATTGTA--GAAAAATATTTC-GGTTAATTTTTGCAAAATTTTAGCCGAAATCTTGTACTA
89087 ACCGTCACAGTTTTTT
318 ACCG---C--TTTTTT
*
89103 TTTTTTAGGCTAAAAACGCGTTTC-GGGCCCCGGCTTAGTTTTGCATGATTTTTGGATCCCAGAG
1 TTTTTTAGGCTAAAAACGCG-TTCGGGGCCCCGGCTAAGTTTTGCATGATTTTTGG--CCCAGAG
* * *
89167 ATCCTAGAAATATCTATATTCATATAA-TAATATATCAGCCACATTAAATTTAATGA-TT-TTTT
63 ATCCTAGAAATATCTATATTCATCTAACCAA-ATCTCAGCCACATTAAATTTAA-GATTTATTTT
* **
89229 TACGAGCACCTGAATCTTGTTTCGATTTAATTA-AAATTAATTTAGAAAAATATGAAAAGTGATA
126 TACGAGCATCTGAATCTT-TTTCGATTTAATTAGAAATTAATTTAGAAAAATATGAAAAACGATA
* *
89293 TTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGACGTTGAATTATATATATTTTATGAGTATTGTG
190 TTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGACATTGAATTATATATATTTTATGAGTATT-TA
*
89358 GCTAAAAATTGTAGAAAAATATTTCGGTTAAATTTTTGCAAAATTTTAGCCGAAATCTTGTACCA
254 GCTAAAAATTGTAGAAAAATATTTCGGTT-AATTTTTGCAAAATTTTAGCCGAAATCTTGTACTA
* * *
89423 TCAAGGTTTTTT
318 AC-CGCTTTTTT
* * * * * *
89435 TTTTTTA-ACTAAAAACGCGATCTGAGGCCCTGTG-TCAGTTTTGCATGATTTTTGGCGTCA-AG
1 TTTTTTAGGCTAAAAACGCGTTC-GGGGCCCCG-GCTAAGTTTTGCATGATTTTTGGC-CCAGAG
* * * *
89497 ACTCCTTAAAATATATTTATATTCATCTAACCAAATCTCAGCCACATTATATTTAAGGATTTGTT
63 A-TCC-TAGAA-ATATCTATATTCATCTAACCAAATCTCAGCCACATTAAATTTAA-GATTTATT
** * * *
89562 TTTACGAGTTTCTAAATCTTTTTTCGATTTAATCAGAAATTAATTTGGAAATAAAAATATGAAAA
124 TTTACGAGCATCTGAATC-TTTTTCGATTTAATTAGAAATTAATTT----AGAAAAATATGAAAA
* * * * * * *
89627 ACGATATTAGAATCGTGAAAAAAG-CTTTCAATTTTTTTGGCATTGAATTATATATTTTTTATGA
184 ACGATATTAAAAGCGTG--AAAAGTCCTCCAATCTTTTTGACATTGAATTATATATATTTTATGA
* * * * * * * *
89691 TTATTTTCGCTAGAAA-TCTAGGAAAAGACTTTCAGGTTAATTTTTACAAAATTTTAGCCAAAAT
247 GTA-TTTAGCTAAAAATTGTAGAAAAATA-TTTC-GGTTAATTTTTGCAAAATTTTAGCCGAAAT
* * ***
89755 CTTATACTAA---CTATCAC
309 CTTGTACTAACCGCTTTTTT
** * * * *
89772 GATTTTCGGCTAAGAACGCGTTCCGCGG-CCCAGCTCAA-TTTTGCATGATTTTTTGTG-CCA-A
1 TTTTTTAGGCTAAAAACGCGTT-CGGGGCCCCGGCT-AAGTTTTGCATGA-TTTTTG-GCCCAGA
* * *
89833 GA--C--------TC------C-T-TAACCAAATCTCAGACACATTAGATTTAAAGATTTGTTTT
62 GATCCTAGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTAAATTT-AAGATTTATTTT
* * * *
89880 TACGAGCATCTGAATCTTGTCTCGATTTAATTAGAAATTAATTCAGATAAAATAGGAAAAACAAT
126 TACGAGCATCTGAATCTT-TTTCGATTTAATTAGAAATTAATTTAGA-AAAATATGAAAAACGAT
* * * * ** * *
89945 ATTAGAAGCGTTAAAAGCCCTTCAATCTTTTT-TTATGTCGAACTATATATTTTTTTATGAGTAT
189 ATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGACAT-T-GAATTATATA-TATTTTATGAGTAT
* * * * *
90009 TCTAGCCAAAAATTG-AGGAAATATCTTTCGGATCAATTTTTGCAAAATTTTAGCCGAAATCGTG
251 T-TAGCTAAAAATTGTA-GAAAAATATTTCGG-TTAATTTTTGCAAAATTTTAGCCGAAATCTTG
* ***
90073 TACTAA-C-CATCACT
313 TACTAACCGCTTTTTT
* * * * * * **
90087 GTTTTT-GGCTAAAAATGCGTTCCAGGGCCACGACTCAGTTTTGCATTCTTTTTGGCGCC-GAGT
1 TTTTTTAGGCTAAAAACGCGTT-CGGGGCCCCGGCTAAGTTTTGCATGATTTTTGGC-CCAGAG-
* * * * ** * * *
90150 CTCCTTA-AATTATCTTTATTCATCTAATCAAATCTCAGCCACATTGGATTGAAGGATATGTTTT
63 ATCC-TAGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTAAATTTAA-GATTTATTTT
* * * *
90214 TATGTGCATCTGAATCTTGTTTTGATTTAATTAGAAATTAATTCT-GAAAAATATGAAAAGCGAT
126 TACGAGCATCTGAATCTT-TTTCGATTTAATTAGAAATTAATT-TAGAAAAATATGAAAAACGAT
** * * * * *
90278 ATTAAAAGTTTGAAAAATCCTTCAAT-TTTTTGGCGTTGAAGTATATATATTTTATGAGTATTT
189 ATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGACATTGAATTATATATATTTTATGAGTATTT
90341 TTGCCAGAAA
Statistics
Matches: 987, Mismatches: 173, Indels: 165
0.74 0.13 0.12
Matches are distributed among these distances:
311 7 0.01
312 15 0.02
313 39 0.04
314 81 0.08
315 29 0.03
316 70 0.07
317 3 0.00
318 2 0.00
324 1 0.00
326 2 0.00
329 1 0.00
330 20 0.02
331 25 0.03
332 50 0.05
333 77 0.08
334 78 0.08
335 32 0.03
336 53 0.05
337 137 0.14
338 74 0.07
339 58 0.06
340 43 0.04
341 79 0.08
342 11 0.01
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (328 bp):
TTTTTTAGGCTAAAAACGCGTTCGGGGCCCCGGCTAAGTTTTGCATGATTTTTGGCCCAGAGATC
CTAGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTAAATTTAAGATTTATTTTTACGA
GCATCTGAATCTTTTTCGATTTAATTAGAAATTAATTTAGAAAAATATGAAAAACGATATTAAAA
GCGTGAAAAGTCCTCCAATCTTTTTGACATTGAATTATATATATTTTATGAGTATTTAGCTAAAA
ATTGTAGAAAAATATTTCGGTTAATTTTTGCAAAATTTTAGCCGAAATCTTGTACTAACCGCTTT
TTT
Found at i:100866 original size:331 final size:332
Alignment explanation
Indices: 99085--101696 Score: 3815
Period size: 335 Copynumber: 7.8 Consensus size: 332
99075 GTAAACCCAC
* * *
99085 AAACGCGTTTCGGGGTCTCGGCTCAGTTTTT-AATAATTTTTGGCAGCGCCACTCCTTGAAATAT
1 AAACGCGTTTCGGGGTCCCGGCTCAGTTTTTCAA-AATTTTTGGCACCGGCACTCCTTGAAATAT
* * *
99149 CTATATTCATCTAATAAAATCTTGGCCACATTGCATTTAATGATTTGTTTTTACAAGCATCCGAC
65 CTATATTCATCTAATAAAATCTTAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCCGAC
* * * * *
99214 TCTTGTTTCGATATAATTAGAATTTATTTCAGAAAAATATGACAAACGATATTAAAAGCATGAAA
130 TCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAA
* * *
99279 AGTCCTCCAATATCTTTGGCGTTAAATCATATATATTTTATGA-TAATTTTATCCAAAAATTGTT
195 AGTCCTCCAATATTTTTGGCGTTAAATTATATATATTTTATGAGT-ATTTTATCCAAAAATTGAT
* ** * *
99343 GAAAAAATTTTCGG-ATCATTTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAAGTATCACGGT
259 G-AAAAATTTTTGGTATTTTTTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAAGCATCACAGT
99407 TTTTGGCTAA
323 TTTTGGCTAA
* * * *
99417 AAACACGTTTCGGGGTCCCGACTCAGATTTTCATAATTTTTGGCACCGGCACTCCTTGAAATATC
1 AAACGCGTTTCGGGGTCCCGGCTCAGTTTTTCAAAATTTTTGGCACCGGCACTCCTTGAAATATC
*
99482 TATATTCATATAA-AAAATTCTTAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCCGAC
66 TATATTCATCTAATAAAA-TCTTAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCCGAC
* *
99546 TCTTGTTTCGATTTAATTAGAACTTAATTCAGAAAAATATGTAAAACGATATTAAAAGCGTGAAA
130 TCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAA
*
99611 AGTCCTCCAATATTTTTGGCGTTAAATTATATATATATTATTTGA-T-TTTTATCCAAAAATTGA
195 AGTCCTCCAATATTTTTGGCGTTAAATTATATATAT-TT-TATGAGTATTTTATCCAAAAATTGA
* *
99674 TGAAAAATTTTTCGGGTCTCTTTTTTTTTGCAAAATTTTAGCCAAAATCATGTAC---GCATCAC
258 TGAAAAATTTTT--GGTAT-TTTTTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAAGCATCAC
*
99736 GAAATTTTTGGCTAA
320 --AGTTTTTGGCTAA
* * * * * *
99751 AAACGCGTTTCGGGGTCCCGGCTCAGTTTTTTATAATTTTAGGTACCGACACTCCTTGAAATATA
1 AAACGCGTTTCGGGGTCCCGGCTCAGTTTTTCAAAATTTTTGGCACCGGCACTCCTTGAAATATC
* *
99816 TATATTCATCTAATAAAATCTTAGCCACATTGCATTTAAGGATTT-CTTTTACGAGTATCCGACT
66 TATATTCATCTAATAAAATCTTAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCCGACT
* *
99880 CTTGTTTCTATTTAATTAGAAATTAATTCAGAAAAATATGTAAAACGATATTAAAAGCGTGAAAA
131 CTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAA
* *
99945 ATCCTCCAATATTTTTGGCATTAAATTATATATATTTTATGAGTATTTTATCCAAAAATTGATGA
196 GTCCTCCAATATTTTTGGCGTTAAATTATATATATTTTATGAGTATTTTATCCAAAAATTGATGA
*
100010 AATAATTTTTCGGGTCTTTATTATTATTTTTTTTGCAAAATTTTAGCTAAAATCGTGTACT-AGC
261 AA-AATTTTT--GG-------TATT-TTTTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAAGC
100074 ATTCACAGTTTTTGGCTAA
315 A-TCACAGTTTTTGGCTAA
100093 AAACGCGTTTCGGGGTCCCGGCTCAG-TTTTCAATAATTTTTGGCACCGGCACTCCTTGAAATAT
1 AAACGCGTTTCGGGGTCCCGGCTCAGTTTTTCAA-AATTTTTGGCACCGGCACTCCTTGAAATAT
*
100157 CTATATTCATCTAATAAAATCTTAGCCACATTACATTTAAGGATTTGTTTTTACGAGCATCCGAC
65 CTATATTCATCTAATAAAATCTTAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCCGAC
* * *
100222 TCTTGTTTCGATTTAATTAGAAATTAATTCAG-AAAATATGTAAAATGATATTAAAAGCTTGAAA
130 TCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAA
* *
100286 AGTCCTCCAATATTTTTGGCATTAAATTATATATATTTTATGAGTACTTTATCCAAAAATTGATG
195 AGTCCTCCAATATTTTTGGCGTTAAATTATATATATTTTATGAGTATTTTATCCAAAAATTGATG
*
100351 AAAAATTTTTCGGGTCATTTTTTATTTTTGCAAAATTTTAGCCAAAATCGTGTACTAACCATCAC
260 AAAAATTTTT--GGT-A-TTTTT-TTTTTGCAAAATTTTAGCCAAAATCGTGTACTAAGCATCAC
*
100416 GGTTTTTTGGCTAA
320 AG-TTTTTGGCTAA
* ** *
100430 AAACGCGTTTCGGGGTCCCGGCTCAGTTTTTCATAATTTTTGGCACCGATACTCCTTGTAATATC
1 AAACGCGTTTCGGGGTCCCGGCTCAGTTTTTCAAAATTTTTGGCACCGGCACTCCTTGAAATATC
100495 TATATTCATCTAATAAAATCTTAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCCGACT
66 TATATTCATCTAATAAAATCTTAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCCGACT
*
100560 CTTGTTTCGATTTAATTAGAATTTAATTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAA
131 CTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAA
*
100625 GTCCTCCAATATTTATGGCGTTAAATTATATATATTTTATGAGTATTTTATCCAAAAATTGATGA
196 GTCCTCCAATATTTTTGGCGTTAAATTATATATATTTTATGAGTATTTTATCCAAAAATTGATGA
* **
100690 AATATTTTTGG-ATTAATTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAAGCATCACAGTTTT
261 AAAATTTTTGGTATTTTTTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAAGCATCACAGTTTT
100754 TGGCTAA
326 TGGCTAA
* * * * *
100761 AAACGCGTTTCGGGGTCTCGGCTCAGTTTTTCAAAATTTTTGGTACCGGCGCTCCTTAAAATATT
1 AAACGCGTTTCGGGGTCCCGGCTCAGTTTTTCAAAATTTTTGGCACCGGCACTCCTTGAAATATC
100826 TATATTCATCTAATAAAATCTTAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCCGACT
66 TATATTCATCTAATAAAATCTTAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCCGACT
* * * *
100891 CTTGTTTCGATTTAATTAGAAACTATTTCAGAAAAATATGAAAAATGATAATAAAAGCGTGAAAA
131 CTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAA
100956 GTCCTCCAATATTTTTGGCGTTAAATTATATATATTTTATGAGTATTTTATCCAAAAATTGATGA
196 GTCCTCCAATATTTTTGGCGTTAAATTATATATATTTTATGAGTATTTTATCCAAAAATTGATGA
* * * **
101021 AAAATTTTTTGGGTCTTTTTTTTTGGCAAAATTTTAGCCAAAATCGTGTACTAACCATCATTGTT
261 AAAA-TTTTT-GGTATTTTTTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAAGCATCACAG-T
101086 TTTTGGCTAA
323 TTTTGGCTAA
* * *
101096 AAACGCGTTTCGTGGTCCCGGCTCAGTTTTTCATAATTTTTGGCACCGACACTCCTTGAAATATC
1 AAACGCGTTTCGGGGTCCCGGCTCAGTTTTTCAAAATTTTTGGCACCGGCACTCCTTGAAATATC
*
101161 TATATTCATCTACTAAAATCTTAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCCGACT
66 TATATTCATCTAATAAAATCTTAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCCGACT
*
101226 CTTGTTTCGGA-TTAATTAGAAATTATTTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAA
131 CTTGTTTC-GATTTAATTAGAAATTAATTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAA
* *
101290 AGTCCTCCAATATTTTTGGCGTTAAATTACATATACATTT-TGAGTATTTTATCCAAAAATTGAT
195 AGTCCTCCAATATTTTTGGCGTTAAATTATATATA-TTTTATGAGTATTTTATCCAAAAATTGAT
* * *
101354 GAAAAAATTTTGGGTCATTTTTTTTTTTTTGCAAAATTTTAGCCAAAATCTTGTACTAACCATCA
259 G-AAAAATTTTTGGT-A---TTTTTTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAAGCATCA
**
101419 TGGTTTTTTTTGGCTAA
319 CAG---TTTTTGGCTAA
** * *
101436 AAACGCGTTTCATGGTCCCGGCTCA-TTTCGT-AATAATTTTTGGCACCGGCAATCCTTGAAATA
1 AAACGCGTTTCGGGGTCCCGGCTCAGTTT-TTCAA-AATTTTTGGCACCGGCACTCCTTGAAATA
101499 TCTATATTCATCTAATAAAATCTTAGCCACATTGCATTTAAGGATTTG-TTTTACGAGCATCCGA
64 TCTATATTCATCTAATAAAATCTTAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCCGA
* *
101563 CTCTTGTTTCAATTTAATTAGAAATTAATTCAGAAAAATATGTAAAACGATATTAAAAGCGTGAA
129 CTCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAA
* * * *
101628 AAGTCCTCCAATATTTCTGGCATGAAATTATATATATATTATGAGTATTTTATCCAAAAATTGAT
194 AAGTCCTCCAATATTTTTGGCGTTAAATTATATATATTTTATGAGTATTTTATCCAAAAATTGAT
101693 -AAAA
259 GAAAA
101697 TAAATTTCGG
Statistics
Matches: 2089, Mismatches: 140, Indels: 97
0.90 0.06 0.04
Matches are distributed among these distances:
331 276 0.13
332 277 0.13
333 145 0.07
334 171 0.08
335 293 0.14
336 50 0.02
337 166 0.08
338 154 0.07
339 136 0.07
340 112 0.05
341 50 0.02
342 205 0.10
343 50 0.02
344 4 0.00
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (332 bp):
AAACGCGTTTCGGGGTCCCGGCTCAGTTTTTCAAAATTTTTGGCACCGGCACTCCTTGAAATATC
TATATTCATCTAATAAAATCTTAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCCGACT
CTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAA
GTCCTCCAATATTTTTGGCGTTAAATTATATATATTTTATGAGTATTTTATCCAAAAATTGATGA
AAAATTTTTGGTATTTTTTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAAGCATCACAGTTTT
TGGCTAA
Found at i:101234 original size:666 final size:668
Alignment explanation
Indices: 99085--101696 Score: 3992
Period size: 666 Copynumber: 3.9 Consensus size: 668
99075 GTAAACCCAC
* * * *
99085 AAACGCGTTTCGGGGTCTCGGCTCAGTTTTTAATAATTTTTGGCAGCGCCACTCCTTGAAATATC
1 AAACGCGTTTCGGGGTCCCGGCTCAGTTTTTCATAATTTTTGGCACCGACACTCCTTGAAATATC
* * *
99150 TATATTCATCTAATAAAATCTTGGCCACATTGCATTTAATGATTTGTTTTTACAAGCATCCGACT
66 TATATTCATCTAATAAAATCTTAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCCGACT
* * * * *
99215 CTTGTTTCGATATAATTAGAATTTATTTCAGAAAAATATGACAAACGATATTAAAAGCATGAAAA
131 CTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAA
* * *
99280 GTCCTCCAATATCTTTGGCGTTAAATCATATATATTTTATGA-TAATTTTATCCAAAAATTGTTG
196 GTCCTCCAATATTTTTGGCGTTAAATTATATATATTTTATGAGT-ATTTTATCCAAAAATTGATG
* * * * *
99344 AAAAAATTTTCGG-ATCATTTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAAGTATCACGGTT
260 AAAAAATTTTTGGTATTAATTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAAGCATCACAGTT
* * *
99408 TTTGGCTAAAAACACGTTTCGGGGTCCCGACTCAGATTTTC-ATAATTTTTGGCACCGGCACTCC
325 TTTGGCTAAAAACGCGTTTCGGGGTCCCGGCTCAGTTTTTCAATAATTTTTGGCACCGGCACTCC
*
99472 TTGAAATATCTATATTCATATAA-AAAATTCTTAGCCACATTGCATTTAAGGATTTGTTTTTACG
390 TTGAAATATCTATATTCATCTAATAAAA-TCTTAGCCACATTGCATTTAAGGATTTGTTTTTACG
99536 AGCATCCGACTCTTGTTTCGATTTAATTAG-AACTTAATTCAGAAAAATATGTAAAACGATATTA
454 AGCATCCGACTCTTGTTTCGATTTAATTAGAAAC-TAATTCAGAAAAATATGTAAAACGATATTA
* *
99600 AAAGCGTGAAAAGTCCTCCAATATTTTTGGCGTTAAATTATATATATATTATTTGA-T-TTTTAT
518 AAAGCGTGAAAAGTCCTCCAATATTTTTGGCATTAAATTATATATAT-TT-TATGAGTATTTTAT
*
99663 CCAAAAATTGATGAAAAATTTTTCGGGTCTCTTTTTTTTTGCAAAATTTTAGCCAAAATCATGTA
581 CCAAAAATTGATGAAAAATTTTTCGGGTCT-TTTTTTTTTGCAAAATTTTAGCCAAAATCGTGTA
* *
99728 C---GCATCACGAAATTTTTGGCTAA
645 CTAACCATCACG--TTTTTTGGCTAA
* * * *
99751 AAACGCGTTTCGGGGTCCCGGCTCAGTTTTTTATAATTTTAGGTACCGACACTCCTTGAAATATA
1 AAACGCGTTTCGGGGTCCCGGCTCAGTTTTTCATAATTTTTGGCACCGACACTCCTTGAAATATC
* *
99816 TATATTCATCTAATAAAATCTTAGCCACATTGCATTTAAGGATTT-CTTTTACGAGTATCCGACT
66 TATATTCATCTAATAAAATCTTAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCCGACT
* *
99880 CTTGTTTCTATTTAATTAGAAATTAATTCAGAAAAATATGTAAAACGATATTAAAAGCGTGAAAA
131 CTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAA
* *
99945 ATCCTCCAATATTTTTGGCATTAAATTATATATATTTTATGAGTATTTTATCCAAAAATTGATGA
196 GTCCTCCAATATTTTTGGCGTTAAATTATATATATTTTATGAGTATTTTATCCAAAAATTGATGA
* *
100010 AATAATTTTTCGGGTCTTTATTATTATTTTTTTTGCAAAATTTTAGCTAAAATCGTGTACT-AGC
261 AAAAATTTTT--GG----TATTA--A--TTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAAGC
100074 ATTCACAGTTTTTGGCTAAAAACGCGTTTCGGGGTCCCGGCTCAG-TTTTCAATAATTTTTGGCA
316 A-TCACAGTTTTTGGCTAAAAACGCGTTTCGGGGTCCCGGCTCAGTTTTTCAATAATTTTTGGCA
*
100138 CCGGCACTCCTTGAAATATCTATATTCATCTAATAAAATCTTAGCCACATTACATTTAAGGATTT
380 CCGGCACTCCTTGAAATATCTATATTCATCTAATAAAATCTTAGCCACATTGCATTTAAGGATTT
*
100203 GTTTTTACGAGCATCCGACTCTTGTTTCGATTTAATTAGAAATTAATTCAG-AAAATATGTAAAA
445 GTTTTTACGAGCATCCGACTCTTGTTTCGATTTAATTAGAAACTAATTCAGAAAAATATGTAAAA
* *
100267 TGATATTAAAAGCTTGAAAAGTCCTCCAATATTTTTGGCATTAAATTATATATATTTTATGAGTA
510 CGATATTAAAAGCGTGAAAAGTCCTCCAATATTTTTGGCATTAAATTATATATATTTTATGAGTA
*
100332 CTTTATCCAAAAATTGATGAAAAATTTTTCGGGTCATTTTTTATTTTTGCAAAATTTTAGCCAAA
575 TTTTATCCAAAAATTGATGAAAAATTTTTCGGGTC--TTTTT-TTTTTGCAAAATTTTAGCCAAA
100397 ATCGTGTACTAACCATCACGGTTTTTTGGCTAA
637 ATCGTGTACTAACCATCAC-GTTTTTTGGCTAA
* *
100430 AAACGCGTTTCGGGGTCCCGGCTCAGTTTTTCATAATTTTTGGCACCGATACTCCTTGTAATATC
1 AAACGCGTTTCGGGGTCCCGGCTCAGTTTTTCATAATTTTTGGCACCGACACTCCTTGAAATATC
100495 TATATTCATCTAATAAAATCTTAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCCGACT
66 TATATTCATCTAATAAAATCTTAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCCGACT
*
100560 CTTGTTTCGATTTAATTAGAATTTAATTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAA
131 CTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAA
*
100625 GTCCTCCAATATTTATGGCGTTAAATTATATATATTTTATGAGTATTTTATCCAAAAATTGATG-
196 GTCCTCCAATATTTTTGGCGTTAAATTATATATATTTTATGAGTATTTTATCCAAAAATTGATGA
*
100689 AAATATTTTTGG-ATTAATTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAAGCATCACAGTTT
261 AAAAATTTTTGGTATTAATTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAAGCATCACAGTTT
* * *
100753 TTGGCTAAAAACGCGTTTCGGGGTCTCGGCTCAGTTTTTCAA-AATTTTTGGTACCGGCGCTCCT
326 TTGGCTAAAAACGCGTTTCGGGGTCCCGGCTCAGTTTTTCAATAATTTTTGGCACCGGCACTCCT
* *
100817 TAAAATATTTATATTCATCTAATAAAATCTTAGCCACATTGCATTTAAGGATTTGTTTTTACGAG
391 TGAAATATCTATATTCATCTAATAAAATCTTAGCCACATTGCATTTAAGGATTTGTTTTTACGAG
* * * *
100882 CATCCGACTCTTGTTTCGATTTAATTAGAAACTATTTCAGAAAAATATGAAAAATGATAATAAAA
456 CATCCGACTCTTGTTTCGATTTAATTAGAAACTAATTCAGAAAAATATGTAAAACGATATTAAAA
*
100947 GCGTGAAAAGTCCTCCAATATTTTTGGCGTTAAATTATATATATTTTATGAGTATTTTATCCAAA
521 GCGTGAAAAGTCCTCCAATATTTTTGGCATTAAATTATATATATTTTATGAGTATTTTATCCAAA
* *
101012 AATTGATGAAAAATTTTTTGGGTCTTTTTTTTTGGCAAAATTTTAGCCAAAATCGTGTACTAACC
586 AATTGATGAAAAATTTTTCGGGTCTTTTTTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAACC
*
101077 ATCATTGTTTTTTGGCTAA
651 ATCA-CGTTTTTTGGCTAA
*
101096 AAACGCGTTTCGTGGTCCCGGCTCAGTTTTTCATAATTTTTGGCACCGACACTCCTTGAAATATC
1 AAACGCGTTTCGGGGTCCCGGCTCAGTTTTTCATAATTTTTGGCACCGACACTCCTTGAAATATC
*
101161 TATATTCATCTACTAAAATCTTAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCCGACT
66 TATATTCATCTAATAAAATCTTAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCCGACT
*
101226 CTTGTTTCGGA-TTAATTAGAAATTATTTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAA
131 CTTGTTTC-GATTTAATTAGAAATTAATTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAA
* *
101290 AGTCCTCCAATATTTTTGGCGTTAAATTACATATACATTT-TGAGTATTTTATCCAAAAATTGAT
195 AGTCCTCCAATATTTTTGGCGTTAAATTATATATA-TTTTATGAGTATTTTATCCAAAAATTGAT
* ** * *
101354 GAAAAAATTTTGGGTCATTTTTTTTTTTTTGCAAAATTTTAGCCAAAATCTTGTACTAACCATCA
259 GAAAAAATTTTTGGT-A---TTAATTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAAGCATCA
** ** *
101419 TGGTTTTTTTTGGCTAAAAACGCGTTTCATGGTCCCGGCTCA-TTTCGT-AATAATTTTTGGCAC
320 CAG---TTTTTGGCTAAAAACGCGTTTCGGGGTCCCGGCTCAGTTT-TTCAATAATTTTTGGCAC
*
101482 CGGCAATCCTTGAAATATCTATATTCATCTAATAAAATCTTAGCCACATTGCATTTAAGGATTTG
381 CGGCACTCCTTGAAATATCTATATTCATCTAATAAAATCTTAGCCACATTGCATTTAAGGATTTG
* *
101547 -TTTTACGAGCATCCGACTCTTGTTTCAATTTAATTAGAAATTAATTCAGAAAAATATGTAAAAC
446 TTTTTACGAGCATCCGACTCTTGTTTCGATTTAATTAGAAACTAATTCAGAAAAATATGTAAAAC
* * *
101611 GATATTAAAAGCGTGAAAAGTCCTCCAATATTTCTGGCATGAAATTATATATATATTATGAGTAT
511 GATATTAAAAGCGTGAAAAGTCCTCCAATATTTTTGGCATTAAATTATATATATTTTATGAGTAT
101676 TTTATCCAAAAATTGAT-AAAA
576 TTTATCCAAAAATTGATGAAAA
101697 TAAATTTCGG
Statistics
Matches: 1790, Mismatches: 113, Indels: 79
0.90 0.06 0.04
Matches are distributed among these distances:
665 140 0.08
666 397 0.22
667 22 0.01
668 194 0.11
669 119 0.07
670 1 0.00
672 49 0.03
673 8 0.00
674 144 0.08
675 213 0.12
676 194 0.11
677 39 0.02
679 123 0.07
680 146 0.08
681 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (668 bp):
AAACGCGTTTCGGGGTCCCGGCTCAGTTTTTCATAATTTTTGGCACCGACACTCCTTGAAATATC
TATATTCATCTAATAAAATCTTAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCCGACT
CTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAA
GTCCTCCAATATTTTTGGCGTTAAATTATATATATTTTATGAGTATTTTATCCAAAAATTGATGA
AAAAATTTTTGGTATTAATTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAAGCATCACAGTTT
TTGGCTAAAAACGCGTTTCGGGGTCCCGGCTCAGTTTTTCAATAATTTTTGGCACCGGCACTCCT
TGAAATATCTATATTCATCTAATAAAATCTTAGCCACATTGCATTTAAGGATTTGTTTTTACGAG
CATCCGACTCTTGTTTCGATTTAATTAGAAACTAATTCAGAAAAATATGTAAAACGATATTAAAA
GCGTGAAAAGTCCTCCAATATTTTTGGCATTAAATTATATATATTTTATGAGTATTTTATCCAAA
AATTGATGAAAAATTTTTCGGGTCTTTTTTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAACC
ATCACGTTTTTTGGCTAA
Done.