Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01018187.1 Corchorus olitorius cultivar O-4 contig18220, 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: 74548
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:516 original size:34 final size:34
Alignment explanation
Indices: 473--539 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
463 TCTATTTTTT
* * *
473 TTTTTTTTTTTGCACAAACTTCTTTTTCCTCTTA
1 TTTTTTTTTTTGCACAAAATCCTCTTTCCTCTTA
507 TTTTTTTTTTTGCACAAAATCCTCTTTCCTCTT
1 TTTTTTTTTTTGCACAAAATCCTCTTTCCTCTT
540 TAAAGCATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.15, C:0.22, G:0.03, T:0.60
Consensus pattern (34 bp):
TTTTTTTTTTTGCACAAAATCCTCTTTCCTCTTA
Found at i:42014 original size:21 final size:19
Alignment explanation
Indices: 41988--42044 Score: 60
Period size: 21 Copynumber: 2.9 Consensus size: 19
41978 CGCTGCTCTA
41988 ATAATCTCATCTGTACAAT
1 ATAATCTCATCTGTACAAT
* * * *
42007 ACCTAATCTAATCTTTATAGT
1 A--TAATCTCATCTGTACAAT
42028 ATAATCTCATCTGTACA
1 ATAATCTCATCTGTACA
42045 GTTGCTAAAC
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
19 14 0.48
21 15 0.52
ACGTcount: A:0.35, C:0.21, G:0.05, T:0.39
Consensus pattern (19 bp):
ATAATCTCATCTGTACAAT
Found at i:43204 original size:17 final size:17
Alignment explanation
Indices: 43182--43236 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 17
43172 ATCACCCCCC
*
43182 AGATCACTAGTGATCTA
1 AGATCACCAGTGATCTA
*
43199 AGATCACCAGTGATGTA
1 AGATCACCAGTGATCTA
* *
43216 AGATCACCGGTGATCAA
1 AGATCACCAGTGATCTA
43233 AGAT
1 AGAT
43237 TACATGGGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (17 bp):
AGATCACCAGTGATCTA
Found at i:44324 original size:29 final size:29
Alignment explanation
Indices: 44282--44337 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
44272 TACAAGTTTA
*
44282 CAACACCACAATTACAAGTTTTCAACAAT
1 CAACACCACAATTACAAGCTTTCAACAAT
44311 CAACACCACAATTACAAGCTTTCAACA
1 CAACACCACAATTACAAGCTTTCAACA
44338 CCGTACAAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.45, C:0.30, G:0.04, T:0.21
Consensus pattern (29 bp):
CAACACCACAATTACAAGCTTTCAACAAT
Found at i:44799 original size:57 final size:55
Alignment explanation
Indices: 44672--44799 Score: 159
Period size: 57 Copynumber: 2.3 Consensus size: 55
44662 GACATCCCTA
*
44672 ATGGAAGGAGATTTCTTCTTTCTTCTTTTTTTTTTCCCCCTGCTTTTGCTTTACTC
1 ATGGAAGGAGATTTCTTCTTTCTTCTTTTTTTTTT-CCCATGCTTTTGCTTTACTC
* * * * *
44728 ATCGAATGATATTTCTTCTTTCTTTCTTTCTTTTTTT-TCATGATTTTTGCTTTACTC
1 ATGGAAGGAGATTTCTTCTTTC-TTCTTT-TTTTTTTCCCATG-CTTTTGCTTTACTC
44785 ATGGAAGGAGATTTC
1 ATGGAAGGAGATTTC
44800 CATACCAGAG
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
56 22 0.37
57 31 0.52
58 7 0.12
ACGTcount: A:0.15, C:0.19, G:0.12, T:0.54
Consensus pattern (55 bp):
ATGGAAGGAGATTTCTTCTTTCTTCTTTTTTTTTTCCCATGCTTTTGCTTTACTC
Found at i:47408 original size:27 final size:27
Alignment explanation
Indices: 47370--47421 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
47360 TAAAATAATA
47370 AAAAGATATCTGATAAGATGATGATTG
1 AAAAGATATCTGATAAGATGATGATTG
47397 AAAAGATATCTGATAAGATGATGAT
1 AAAAGATATCTGATAAGATGATGAT
47422 CTTATATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.46, C:0.04, G:0.21, T:0.29
Consensus pattern (27 bp):
AAAAGATATCTGATAAGATGATGATTG
Found at i:49058 original size:2 final size:2
Alignment explanation
Indices: 49051--49083 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
49041 TGACAAGAAA
49051 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 A
49084 CACACATCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:50216 original size:20 final size:20
Alignment explanation
Indices: 50191--50233 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
50181 TCTATATCTA
50191 TATACTAGTAATATTAATAT
1 TATACTAGTAATATTAATAT
* * *
50211 TATACTATTATTATTATTAT
1 TATACTAGTAATATTAATAT
50231 TAT
1 TAT
50234 TATAATATAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (20 bp):
TATACTAGTAATATTAATAT
Found at i:50776 original size:19 final size:19
Alignment explanation
Indices: 50752--50788 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
50742 TTCAAAATTC
*
50752 AACTTTTCTAAATTTCAAT
1 AACTTTTCCAAATTTCAAT
*
50771 AACTTTTCCACATTTCAA
1 AACTTTTCCAAATTTCAA
50789 ATTAGCCGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (19 bp):
AACTTTTCCAAATTTCAAT
Found at i:50989 original size:22 final size:22
Alignment explanation
Indices: 50957--51043 Score: 88
Period size: 22 Copynumber: 4.0 Consensus size: 22
50947 TTCATTGTGT
*
50957 GGTTACTAAAATTTTATAGTGG
1 GGTTACTAAAATTTTATAGTGA
*
50979 GGTT-CTCAAAATTTTATGGTGA
1 GGTTACT-AAAATTTTATAGTGA
*
51001 GGTTACTAAAATTTCATAG-GTA
1 GGTTACTAAAATTTTATAGTG-A
* * *
51023 GGATATTAAGATTTTATAGTG
1 GGTTACTAAAATTTTATAGTG
51044 TAGTTATCAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
21 3 0.06
22 47 0.89
23 3 0.06
ACGTcount: A:0.32, C:0.06, G:0.22, T:0.40
Consensus pattern (22 bp):
GGTTACTAAAATTTTATAGTGA
Found at i:51040 original size:66 final size:65
Alignment explanation
Indices: 50933--51219 Score: 171
Period size: 65 Copynumber: 4.3 Consensus size: 65
50923 TTTTAATTTT
* * * * * * * *
50933 GGAGGTTATCAAAA-TTCAT-TGTGTGGTTACTAAAATTTTATAGTGGGGTTCTCAAAATTTTAT
1 GGAGGTTATCAAAATTTCATAAG-GAGGATATTAAGATTTTATAGTGGAGTTATCAAAATTTCAT
50996 G
65 G
* *
50997 GTGAGGTTA-CTAAAATTTCAT-AGGTAGGATATTAAGATTTTATAGTGTAGTTATCACAATTTC
1 G-GAGGTTATC-AAAATTTCATAAGG-AGGATATTAAGATTTTATAGTGGAGTTATCAAAATTTC
51060 ATG
63 ATG
* * * *
51063 GGATGTTATCAAAATTTCATAAGGAGGTTATTAAAATAAAATTTCATA-AGGATGTTATCAAAAT
1 GGAGGTTATCAAAATTTCATAAGGAGGATATTAAGAT----TTT-ATAGTGGA-GTTATCAAAAT
* *
51127 TCCATAT
60 TTCAT-G
* * * *
51134 GAAGGTTATCAAATTTTCATAAGGAGGTTATTGAA-A-TTAAT-G-GGAAGGTTATCAAAATTTC
1 GGAGGTTATCAAAATTTCATAAGGAGGATATT-AAGATTTTATAGTGG-A-GTTATCAAAATTTC
*
51195 ACAG
63 A-TG
51199 GGAGGTTA-CTAAAATTTCATA
1 GGAGGTTATC-AAAATTTCATA
51220 CTCTGGTTAT
Statistics
Matches: 177, Mismatches: 28, Indels: 35
0.74 0.12 0.15
Matches are distributed among these distances:
64 5 0.03
65 73 0.41
66 45 0.25
69 5 0.03
70 17 0.10
71 30 0.17
72 2 0.01
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.37
Consensus pattern (65 bp):
GGAGGTTATCAAAATTTCATAAGGAGGATATTAAGATTTTATAGTGGAGTTATCAAAATTTCATG
Found at i:51098 original size:22 final size:22
Alignment explanation
Indices: 51046--51307 Score: 147
Period size: 22 Copynumber: 11.8 Consensus size: 22
51036 TTATAGTGTA
* * *
51046 GTTATCACAATTTCAT-GGGAT
1 GTTATCAAAATTTCATAAGGAG
51067 GTTATCAAAATTTCATAAGGAG
1 GTTATCAAAATTTCATAAGGAG
* *
51089 GTTATTAAAATAAAATTTCATAAGGAT
1 GTTA-T----CAAAATTTCATAAGGAG
* * *
51116 GTTATCAAAATTCCATATGAAG
1 GTTATCAAAATTTCATAAGGAG
*
51138 GTTATCAAATTTTCATAAGGAG
1 GTTATCAAAATTTCATAAGGAG
** * *
51160 GTTATTGAAA-TTAAT-GGGAAG
1 GTTATCAAAATTTCATAAGG-AG
* *
51181 GTTATCAAAATTTCACAGGGAG
1 GTTATCAAAATTTCATAAGGAG
****
51203 GTTA-CTAAAATTTCATACTCTG
1 GTTATC-AAAATTTCATAAGGAG
* * *
51225 GTTATCTAAATTTCATAGGGCG
1 GTTATCAAAATTTCATAAGGAG
* ** * *
51247 ATTATGGAAATTTTATATGGAG
1 GTTATCAAAATTTCATAAGGAG
*
51269 GTTATCAAAATTTCAT-AGAAAG
1 GTTATCAAAATTTCATAAG-GAG
* *
51291 ATGATCAAAATTTCATA
1 GTTATCAAAATTTCATA
51308 GTGTGTTTAT
Statistics
Matches: 181, Mismatches: 47, Indels: 24
0.72 0.19 0.10
Matches are distributed among these distances:
20 2 0.01
21 31 0.17
22 123 0.68
23 5 0.03
26 1 0.01
27 19 0.10
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (22 bp):
GTTATCAAAATTTCATAAGGAG
Found at i:51111 original size:27 final size:27
Alignment explanation
Indices: 51073--51126 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
51063 GGATGTTATC
*
51073 AAAATTTCATAAGGAGGTTATTAAAAT
1 AAAATTTCATAAGGAGGTTATCAAAAT
*
51100 AAAATTTCATAAGGATGTTATCAAAAT
1 AAAATTTCATAAGGAGGTTATCAAAAT
51127 TCCATATGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.48, C:0.06, G:0.13, T:0.33
Consensus pattern (27 bp):
AAAATTTCATAAGGAGGTTATCAAAAT
Found at i:51339 original size:21 final size:22
Alignment explanation
Indices: 51297--51340 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
51287 AAAGATGATC
* * *
51297 AAAATTTCATAGTGTGTTTATA
1 AAAATTACATAGTGAGTATATA
51319 AAAATTACATAGTGAG-ATATA
1 AAAATTACATAGTGAGTATATA
51340 A
1 A
51341 TGAGCTTATC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (22 bp):
AAAATTACATAGTGAGTATATA
Found at i:51450 original size:22 final size:22
Alignment explanation
Indices: 51405--51488 Score: 80
Period size: 22 Copynumber: 3.8 Consensus size: 22
51395 CAATTTCACA
* *
51405 GAGGTTAACAAAATTTAATG-GG
1 GAGGTTATCAAAATTTTA-GAGG
*
51427 GAGGTTATCGAAATTTTAGAGG
1 GAGGTTATCAAAATTTTAGAGG
** * *
51449 GATATTATCAAAATTTTATAGT
1 GAGGTTATCAAAATTTTAGAGG
*
51471 GTGGTTATCAAAATTTTA
1 GAGGTTATCAAAATTTTA
51489 TAATGTGGTA
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
21 1 0.02
22 49 0.98
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (22 bp):
GAGGTTATCAAAATTTTAGAGG
Found at i:51489 original size:22 final size:22
Alignment explanation
Indices: 51453--51497 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
51443 TAGAGGGATA
*
51453 TTATCAAAATTTTATAGTGTGG
1 TTATCAAAATTTTATAATGTGG
51475 TTATCAAAATTTTATAATGTGG
1 TTATCAAAATTTTATAATGTGG
51497 T
1 T
51498 ATTTCAGAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (22 bp):
TTATCAAAATTTTATAATGTGG
Found at i:51589 original size:43 final size:44
Alignment explanation
Indices: 51541--51632 Score: 105
Period size: 44 Copynumber: 2.1 Consensus size: 44
51531 TGTGGTAATT
* * *
51541 AAAATTTCATAATGAGTTTATCACAA-TTTATAGTGAGATTAAC
1 AAAATTTCATAATGAGGTTATCAAAATTTTATAGGGAGATTAAC
* ** * *
51584 AAAATTTGATTGTGTGGTTCTCAAAATTTTATAGGGAGATTAAC
1 AAAATTTCATAATGAGGTTATCAAAATTTTATAGGGAGATTAAC
51628 AAAAT
1 AAAAT
51633 GTAAGTTATC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
43 19 0.47
44 21 0.52
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.37
Consensus pattern (44 bp):
AAAATTTCATAATGAGGTTATCAAAATTTTATAGGGAGATTAAC
Found at i:51630 original size:22 final size:22
Alignment explanation
Indices: 51541--51632 Score: 69
Period size: 22 Copynumber: 4.2 Consensus size: 22
51531 TGTGGTAATT
* * * *
51541 AAAATTTCATAATGAGTTTATC
1 AAAATTTTATAGTGAGATTAAC
*
51563 ACAA-TTTATAGTGAGATTAAC
1 AAAATTTTATAGTGAGATTAAC
* * * * **
51584 AAAATTTGATTGTGTGGTTCTC
1 AAAATTTTATAGTGAGATTAAC
*
51606 AAAATTTTATAGGGAGATTAAC
1 AAAATTTTATAGTGAGATTAAC
51628 AAAAT
1 AAAAT
51633 GTAAGTTATC
Statistics
Matches: 50, Mismatches: 19, Indels: 2
0.70 0.27 0.03
Matches are distributed among these distances:
21 16 0.32
22 34 0.68
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.37
Consensus pattern (22 bp):
AAAATTTTATAGTGAGATTAAC
Found at i:51690 original size:21 final size:21
Alignment explanation
Indices: 51664--52054 Score: 146
Period size: 22 Copynumber: 17.8 Consensus size: 21
51654 GTGTAGTTAA
* *
51664 TTATCAAAATTTCATTGGGGG
1 TTATCAAAATTTCATAGGAGG
* **
51685 TTATCAAAATTTAATAGTGTTG
1 TTATCAAAATTTCATAG-GAGG
*
51707 TTATCAAAATTTCATAGGAGT
1 TTATCAAAATTTCATAGGAGG
* * *
51728 TTAACAAAATTTTATAAGAAGG
1 TTATCAAAATTTCAT-AGGAGG
* * *
51750 TTATAAAAAAATT-ATAGGGATG
1 TTAT-CAAAATTTCATA-GGAGG
*
51772 TTATCAAAATTTCATAAGATGG
1 TTATCAAAATTTCATAGGA-GG
* *
51794 TTATCAAAATTTTATAGGGAAGT
1 TTATCAAAATTTCATA-GG-AGG
*
51817 TTAT-AAAATTTTCATAGTGACG
1 TTATCAAAA-TTTCATAG-GAGG
* * *
51839 -TATCACAATTTCATCGTATGG
1 TTATCAAAATTTCATAGGA-GG
* * *
51860 TTATCAAAATTTCATAATGTGA
1 TTATCAAAATTTCAT-AGGAGG
* * *
51882 TTACCAATATTTTACT-GGAAGG
1 TTATCAAAATTTCA-TAGG-AGG
** *
51904 TTATCAAAATTTCATAATGTCCGC
1 TTATCAAAATTTCAT-A-G-GAGG
* * * *
51928 TTACCAACATTTCATTGCGATG
1 TTATCAAAATTTCATAG-GAGG
* *
51950 TTATCGAAATTTTATAGG-GTG
1 TTATCAAAATTTCATAGGAG-G
*
51971 ATTATCAAAATTTCATTAGGTGG
1 -TTATCAAAATTTCA-TAGGAGG
* *
51994 TTATTAAAATTTTTATAGG-GAG
1 TTATCAAAA-TTTCATAGGAG-G
* * **
52016 TGTAACAAAATTTTATAGGGAAA
1 T-TATCAAAATTTCATA-GGAGG
*
52039 TTAACAAAATTTCATA
1 TTATCAAAATTTCATA
52055 TGAAGGTCCT
Statistics
Matches: 269, Mismatches: 72, Indels: 57
0.68 0.18 0.14
Matches are distributed among these distances:
20 1 0.00
21 54 0.20
22 159 0.59
23 38 0.14
24 17 0.06
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (21 bp):
TTATCAAAATTTCATAGGAGG
Found at i:51849 original size:66 final size:66
Alignment explanation
Indices: 51706--51876 Score: 179
Period size: 66 Copynumber: 2.6 Consensus size: 66
51696 TAATAGTGTT
* * *
51706 GTTATCAAAATTTCATAGGA-GTTTAACAAAATTTTATAAGAAGGTTATAAAAAAATTATAGGGA
1 GTTATCAAAATTTCATAAGATGGTTATCAAAATTTTATAAGAAGGTTATAAAAAAATTATAGGGA
*
51770 T
66 C
* * ** *
51771 GTTATCAAAATTTCATAAGATGGTTATCAAAATTTTATAGGGAAGTTTAT-AAAATTTTCATAGT
1 GTTATCAAAATTTCATAAGATGGTTATCAAAATTTTATA-AGAAGGTTATAAAAAAATT-ATAGG
51835 GAC
64 GAC
* * *
51838 G-TATCACAATTTCAT-CGTATGGTTATCAAAATTTCATAA
1 GTTATCAAAATTTCATAAG-ATGGTTATCAAAATTTTATAA
51877 TGTGATTACC
Statistics
Matches: 89, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
65 20 0.22
66 54 0.61
67 15 0.17
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (66 bp):
GTTATCAAAATTTCATAAGATGGTTATCAAAATTTTATAAGAAGGTTATAAAAAAATTATAGGGA
C
Found at i:52134 original size:19 final size:21
Alignment explanation
Indices: 52087--52138 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
52077 GGATCGCATA
*
52087 AAAACTTTATAGTGTAATTATC
1 AAAATTTTATAGTG-AATTATC
52109 AAAATTTTATAGTG-ATTATC
1 AAAATTTTATAGTGAATTATC
52129 -AAATTTTATA
1 AAAATTTTATA
52139 AAAATATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 10 0.34
20 6 0.21
22 13 0.45
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (21 bp):
AAAATTTTATAGTGAATTATC
Found at i:56906 original size:6 final size:6
Alignment explanation
Indices: 56895--57056 Score: 102
Period size: 6 Copynumber: 30.3 Consensus size: 6
56885 TGGCATGGGC
*
56895 GGCATG GGCATG GG--T- GGCATG GACATG GG--T- GGCATG GGCATG
1 GGCATG GGCATG GGCATG GGCATG GGCATG GGCATG GGCATG GGCATG
*
56937 GG--T- GGCATG GGCATGGG GGCATG GACATGGG GGCATG GGCATG GGC---
1 GGCATG GGCATG GGCAT--G GGCATG GGCAT--G GGCATG GGCATG GGCATG
56983 GGCATG GGCATG GGC--- GGCATG GGCATG GG--T- GGCATG GGCATG
1 GGCATG GGCATG GGCATG GGCATG GGCATG GGCATG GGCATG GGCATG
57025 GG--T- GGCATG GGCATG GG--T- GGCATG GGCATG GG
1 GGCATG GGCATG GGCATG GGCATG GGCATG GGCATG GG
57057 TGATGGTGGC
Statistics
Matches: 124, Mismatches: 4, Indels: 56
0.67 0.02 0.30
Matches are distributed among these distances:
3 18 0.15
4 6 0.05
5 6 0.05
6 83 0.67
8 11 0.09
ACGTcount: A:0.15, C:0.15, G:0.53, T:0.17
Consensus pattern (6 bp):
GGCATG
Found at i:56906 original size:15 final size:15
Alignment explanation
Indices: 56886--57058 Score: 287
Period size: 15 Copynumber: 11.7 Consensus size: 15
56876 AGGCATGGGT
*
56886 GGCATGGGCGGCATG
1 GGCATGGGTGGCATG
56901 GGCATGGGTGGCATG
1 GGCATGGGTGGCATG
*
56916 GACATGGGTGGCATG
1 GGCATGGGTGGCATG
56931 GGCATGGGTGGCATG
1 GGCATGGGTGGCATG
56946 GGCATGGG-GGCATG
1 GGCATGGGTGGCATG
*
56960 GACATGGG-GGCATG
1 GGCATGGGTGGCATG
*
56974 GGCATGGGCGGCATG
1 GGCATGGGTGGCATG
*
56989 GGCATGGGCGGCATG
1 GGCATGGGTGGCATG
57004 GGCATGGGTGGCATG
1 GGCATGGGTGGCATG
57019 GGCATGGGTGGCATG
1 GGCATGGGTGGCATG
57034 GGCATGGGTGGCATG
1 GGCATGGGTGGCATG
57049 GGCATGGGTG
1 GGCATGGGTG
57059 ATGGTGGCTT
Statistics
Matches: 151, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
14 26 0.17
15 125 0.83
ACGTcount: A:0.14, C:0.15, G:0.53, T:0.17
Consensus pattern (15 bp):
GGCATGGGTGGCATG
Found at i:57930 original size:33 final size:33
Alignment explanation
Indices: 57888--57954 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
57878 TGAAAACCGA
*
57888 TCAATACTACCATGGCTCGGGGTGCTGTTTCGT
1 TCAATACTACCATGGCTCGGGGTGCTATTTCGT
*
57921 TCAATACTACCATGGCTTGGGGTGCTATTTCGT
1 TCAATACTACCATGGCTCGGGGTGCTATTTCGT
57954 T
1 T
57955 GAAACCGGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.36
Consensus pattern (33 bp):
TCAATACTACCATGGCTCGGGGTGCTATTTCGT
Found at i:58036 original size:61 final size:61
Alignment explanation
Indices: 57966--58092 Score: 236
Period size: 61 Copynumber: 2.1 Consensus size: 61
57956 AAACCGGTAC
*
57966 CAACGCCATGGTTCACTAATTCTGAACATGGATGGTCCAAGGAGGGTTATTGATGGCCATG
1 CAACGCCATGGTTCACTAATTCTGAACATGGATGGTCCAAGGAGGGCTATTGATGGCCATG
*
58027 CAACGCCATGGTTCACTAATTCTGAACATGGATGGTTCAAGGAGGGCTATTGATGGCCATG
1 CAACGCCATGGTTCACTAATTCTGAACATGGATGGTCCAAGGAGGGCTATTGATGGCCATG
58088 CAACG
1 CAACG
58093 GCAGGAGGGC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (61 bp):
CAACGCCATGGTTCACTAATTCTGAACATGGATGGTCCAAGGAGGGCTATTGATGGCCATG
Found at i:58410 original size:45 final size:45
Alignment explanation
Indices: 58361--58498 Score: 119
Period size: 45 Copynumber: 3.1 Consensus size: 45
58351 GCAGGGATGT
*
58361 TGGATTGCTGAAATTCGGCACATTTATAGGGAGGGAATGGATGCG
1 TGGATTGCTGAAATTCGGCACATTTATAGGGAGGAAATGGATGCG
* * * **
58406 TGGA-T-CTGTAATTCGTG-A-TTGTTAT-GAGATCATACATGGA-G-G
1 TGGATTGCTGAAATTCG-GCACAT-TTATAGGGAGGA-A-ATGGATGCG
*
58448 TTGGATTGCTGAAATTCGGCACATTTATAGGGAGGAAATAGATGCG
1 -TGGATTGCTGAAATTCGGCACATTTATAGGGAGGAAATGGATGCG
58494 TGGAT
1 TGGAT
58499 CTTTTGGCAA
Statistics
Matches: 69, Mismatches: 12, Indels: 24
0.66 0.11 0.23
Matches are distributed among these distances:
42 5 0.07
43 20 0.29
44 13 0.19
45 25 0.36
46 6 0.09
ACGTcount: A:0.28, C:0.10, G:0.32, T:0.30
Consensus pattern (45 bp):
TGGATTGCTGAAATTCGGCACATTTATAGGGAGGAAATGGATGCG
Found at i:58475 original size:88 final size:88
Alignment explanation
Indices: 58326--58500 Score: 305
Period size: 88 Copynumber: 2.0 Consensus size: 88
58316 TGTTACACCT
* *
58326 TAATTCGTGATTGTTATGAGATCATGCAGGGATGTTGGATTGCTGAAATTCGGCACATTTATAGG
1 TAATTCGTGATTGTTATGAGATCATACAGGGAGGTTGGATTGCTGAAATTCGGCACATTTATAGG
* *
58391 GAGGGAATGGATGCGTGGATCTG
66 GAGGAAATAGATGCGTGGATCTG
*
58414 TAATTCGTGATTGTTATGAGATCATACATGGAGGTTGGATTGCTGAAATTCGGCACATTTATAGG
1 TAATTCGTGATTGTTATGAGATCATACAGGGAGGTTGGATTGCTGAAATTCGGCACATTTATAGG
58479 GAGGAAATAGATGCGTGGATCT
66 GAGGAAATAGATGCGTGGATCT
58501 TTTGGCAACT
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 82 1.00
ACGTcount: A:0.27, C:0.10, G:0.31, T:0.32
Consensus pattern (88 bp):
TAATTCGTGATTGTTATGAGATCATACAGGGAGGTTGGATTGCTGAAATTCGGCACATTTATAGG
GAGGAAATAGATGCGTGGATCTG
Found at i:65021 original size:29 final size:30
Alignment explanation
Indices: 64971--65030 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
64961 CTAATTAATG
* *
64971 TATACATATAAATTATTCAATTTTATTATA
1 TATAAATATAAATTATTCAATTATATTATA
*
65001 TATAAATAT-AATTATTTAATTATATTATA
1 TATAAATATAAATTATTCAATTATATTATA
65030 T
1 T
65031 TATTTATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (30 bp):
TATAAATATAAATTATTCAATTATATTATA
Found at i:66803 original size:329 final size:329
Alignment explanation
Indices: 66184--69459 Score: 3199
Period size: 330 Copynumber: 10.0 Consensus size: 329
66174 GATATTAAAA
* * * * ** *
66184 TTGAATTATATATTTTTTTTGAGTATTGTGGTAAAGAATTGAGGAAATTTTTTCGGGTCAGTATT
1 TTGAATTATATATTATTTCTGAGTATTGTGGCAAAGAATTGAGAAAAAATTTTCGGGTCAGTTTT
* *
66249 TGCAAAATTTTAGTCGAAATCGTGTACTAATCATCACGGTTTTTGGGCTAAAAACGCGTTTCGGG
66 TGCAAAATTTTAGTCGAAATCGTGTACTAACCATCACTGTTTTT--GCTAAAAACGCGTTTCGGG
* * *
66314 GCCCC-AGCTCAGTTTTGCATTATTTTTTGCAGAAAGACTCCTTGAAATATCTATATTTATCTAA
129 GCCCCGA-CTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAA
* * * *
66378 CCAAATCTTAGTCACATTGGATTTAAGGATTTGTTTTTACGAGCTTCTGAATCTTATTTCGATTT
193 CCAATTCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCTTCTGAATCTTGTTTCGATTT
* * * * * * *
66443 AATTTGAAATAAATTCGGGAAAAATGGAAAAATGATATTAGAAGCATGAAAAACCCTTTACCTCT
258 AATTAGAAATTAATTCGGAAAAAATGGAAAAACGATATTAGAAGCATGAAAAACCCTTAATCTTT
66508 TTTG-CG
323 TTTGACG
*
66514 CTGAATTATATATATATTT-T-AGTATTGTGGCAAAGAATTGACGAAAAAATTTTCGGGTCAGTT
1 TTGAATTATATAT-TATTTCTGAGTATTGTGGCAAAGAATTGA-GAAAAAATTTTCGGGTCAGTT
* * * * *
66577 TTTGCAAAATTTTAGTCGAAATCATGTACTAATCGTCACAATCTTTTTGCTAAAAACGCGTTCCG
64 TTTGCAAAATTTTAGTCGAAATCGTGTACTAACCATCAC--TGTTTTTGCTAAAAACGCGTTTCG
* * *
66642 GGGCCCCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGATTCCTTG-AATATCTATATTCATTTA
127 GGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTA
* *
66706 ACCAATTATCAACCACATTGGATTTAAGGATTTGTTTTTACGAGCATT-TGAATCTTGTTTCGAT
192 ACCAATTCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGC-TTCTGAATCTTGTTTCGAT
* * * *
66770 TTAATTAAAAATTAATTCGGAAAAAATGGAAAAACAATTTTAGAAGCGTGAAAAACCCTTAAATC
256 TTAATTAGAAATTAATTCGGAAAAAATGGAAAAACGATATTAGAAGCATGAAAAACCCTT-AATC
**
66835 TTTTTT-TTG
320 TTTTTTGACG
* * *
66844 TTGAATTATATATCT-TTTATGAGTATTGTGGCAAAAAAATTGAGAATAAAAATTTTTCAGGTCA
1 TTGAATTATATAT-TATTTCTGAGTATTGTGGC-AAAGAATTGAG-A-AAAAA-TTTTCGGGTCA
* * * *
66908 G----T------TTTTAGCCGAAATCGGGTACTAACCATCACGGTTTTTGAATAAAAACGCGTTT
61 GTTTTTGCAAAATTTTAGTCGAAATCGTGTACTAACCATCACTGTTTTTG-CTAAAAACGCGTTT
* * * * * * *
66963 CGGGGCCTCGACTCAGTTTAGCATGGTTTTTGACATAATAAAAACTCCTTAAAATATCTATATTC
125 CGGGGCCCCGACTCAGTTTTGCATGATTTTTGGC---AGAAAGACTCCTTGAAATATCTATATTC
* * * * * *
67028 ATCTACCCAAATCTCAGCCACATTCGATTTAAGGATTTGTTTTTATGAGCTTCTAAATGTTGTTT
187 ATCTAACCAATTCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCTTCTGAATCTTGTTT
* * *
67093 CGATTTAAATT-GAAATAAATTCGGGAAAAAATGGGAAAACGATATTAGAAGCATGAAAAACCTT
252 CGATTT-AATTAGAAATTAATTC-GGAAAAAATGGAAAAACGATATTAGAAGCATGAAAAACCCT
*
67157 TAAT-TTTCTTTGTC-
315 TAATCTTT-TTTGACG
* * *
67171 TTGAATTATACATTTTTCTCTGAGTATTGTGGCAAAGAATTGAGGAAAAATTGTTCGGGTCAGTT
1 TTGAATTATATATTATT-TCTGAGTATTGTGGCAAAGAATTGAGAAAAAATT-TTCGGGTCAG-T
* * *
67236 TTTTGCAAAATTTTAGTCGAAATCGTGTACTAACCATCACGGTTTTTGCTGAAAACGCATTTCGG
63 TTTTGCAAAATTTTAGTCGAAATCGTGTACTAACCATCACTGTTTTTGCTAAAAACGCGTTTCGG
* * *
67301 GGCCCCGACTTAGTTTTGCATGATTTTTGGCAGAAAGACTTCTTGAAATATCTATATTCATTTAA
128 GGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAA
* * * *
67366 CCAATTTTCAGCCACAATGGATTTAAGGATTTGTTTTTACGAGCATCTTAATCTTGTTTCGATTT
193 CCAATTCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCTTCTGAATCTTGTTTCGATTT
*** * * ** * *
67431 AATTTCTAATTAAATCGAAAAAAATGGAAAAACTTTATTAGAAGTATGAAAAACCCTTCAAT-AT
258 AATTAGAAATTAATTCGGAAAAAATGGAAAAACGATATTAGAAGCATGAAAAACCCTT-AATCTT
67495 TTTTGACG
322 TTTTGACG
* *
67503 TTGAATTATATATTATTTTTGAGTATTGTGGCAAAAAATTGA-AAAATAATTTT----TC-G---
1 TTGAATTATATATTATTTCTGAGTATTGTGGCAAAGAATTGAGAAAA-AATTTTCGGGTCAGTTT
* * * * *
67559 -TG-TAAGTTTCTAGCCGAAATCGTG---TAACCATCA-TGGTGTTTGGGCAAAAAACGCGTTTC
65 TTGCAAAATTT-TAGTCGAAATCGTGTACTAACCATCACT-GT-TTT-TGCTAAAAACGCGTTTC
*** * * *
67618 ATTGCCTCGGCTCAGTTTTGCATGA-TTTTGGCCAGAAAGACTCCCTGAAATATCTATATTCATC
126 GGGGCCCCGACTCAGTTTTGCATGATTTTTGG-CAGAAAGACTCCTTGAAATATCTATATTCATC
* * *** * *
67682 TAACCAAATCTAAGCCACATTGGATTTAAGGATTTACCTTTACGATCTTCTGAATCTTATTTCGA
190 TAACCAATTCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCTTCTGAATCTTGTTTCGA
* *
67747 TTTAATTAGAAA-TAAGTTCGGGAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTATAA
255 TTTAATTAGAAATTAA-TTCGGAAAAAATGGAAAAACGATATTAGAAGCATGAAAAACCCT-TAA
*
67811 TTTTTTTTTG-CG
318 -TCTTTTTTGACG
* * * * * * *
67823 TTAAATTATAT-TTTTTTCTAATTGTTGTGGCAAAGAATTGCGGAAAAAATTTTTGGGTCAGTTT
1 TTGAATTATATATTATTTCTGAGTATTGTGGCAAAGAATTG-AGAAAAAATTTTCGGGTCAGTTT
* * * *
67887 TGGCAAAATTTTAGTTGAAATCGTGTACTAACCATCACAGTTTTTGCTAAAAACGCGTTCCGGGG
65 TTGCAAAATTTTAGTCGAAATCGTGTACTAACCATCACTGTTTTTGCTAAAAACGCGTTTCGGGG
* *
67952 CCACGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATTTAACC
130 CCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACC
* * *
68017 AATTCTCAGCCATATTGGATTTAAGGATTTGTTTTTACGAG-TATCTTAATCTTGTTTTGATTTA
195 AATTCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCT-TCTGAATCTTGTTTCGATTTA
* * * * * * * ** *
68081 ATTAAAAAATAATT--AAATAAAAAGGAAAAATGATATTAGAAGCGTGATAAATGCTTCGATC-T
259 ATTAGAAATTAATTCGGAA-AAAATGGAAAAACGATATTAGAAGCATGAAAAACCCTT-AATCTT
*
68143 TTTTGATG
322 TTTTGACG
* * *
68151 TTGAATTATATATTATTTCTGAGTATTGTGGCAAAAAATTCGGGAAAAAATTTT----TCA---A
1 TTGAATTATATATTATTTCTGAGTATTGTGGCAAAGAATT-GAGAAAAAATTTTCGGGTCAGTTT
* ** * * * *
68209 AT--AAGTTTTTAGCCGAAAATTGTGTACTAACAATCAC-G--GTT--T---------T-T-GGG
65 TTGCAAAATTTTAGTCG-AAATCGTGTACTAACCATCACTGTTTTTGCTAAAAACGCGTTTCGGG
* * * * * *
68256 GCCCTGGCTCAGTTTTGCATGATTTTTAGTAGAAAAACTCATTGAAATATCTATATTCATCTAAC
129 GCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAAC
* * * * *
68321 CAAATCTTAGCCACATTGGATTTAAGAATTTGTTTTTACTAGCTTCTGAATCTTATTTCGATTTA
194 CAATTCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCTTCTGAATCTTGTTTCGATTTA
*
68386 ATTAG-AATTAAATTCGGGAAAAAATGGAAAAAAAAAACGATATTAGAAGCGTGAAAAACCCTTT
259 ATTAGAAATT-AATTC-GGAAAAAATGG-----AAAAACGATATTAGAAGCATGAAAAACCC-TT
*
68450 AATTTTTTTTG-CG
316 AATCTTTTTTGACG
* * * * *
68463 TTGAATTATACAATT-TTTCTAAGTATTGTGGCAAAGAATTAAGGAAAAATTTTTTGGGTCAGTT
1 TTGAATTATA-TATTATTTCTGAGTATTGTGGCAAAGAATTGA-GAAAAAATTTTCGGGTCAGTT
* * * * * *
68527 TTAGCAAAATTTTAGTCCAAATCGTGTACTAACCATAACGGTTTTTTTGCTAAATACGCGTTCCA
64 TTTGCAAAATTTTAGTCGAAATCGTGTACTAACCATCAC--TGTTTTTGCTAAAAACGCGTTTC-
* * * * * *
68592 AGGGGGCTCGGCTAAATTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATT
126 -GGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATC
* * * * *
68657 TAACCAATCCTCAGCCACAATGGATTTAAGGATTTGCTTTTACGAGCATCTTAATCTTGTTTCGA
190 TAACCAATTCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCTTCTGAATCTTGTTTCGA
* *
68722 TTTAATTAGAAATTAATTCGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAAT
255 TTTAATTAGAAATTAATTCGGAAAAAATGGAAAAACGATATTAGAAGCATGAAAAACCCTT-AAT
** *
68787 C-TTTAAGATG
319 CTTTTTTGACG
* * * * *
68797 TTGAATTATATATTTTTTCTGAGTAATGTGGCAAAAAATTCAGAAAAAACATTT----TCAG---
1 TTGAATTATATATTATTTCTGAGTATTGTGGCAAAGAATTGAGAAAAAA-TTTTCGGGTCAGTTT
* ** * * * **
68855 AT--AAGTTTTTAGCCGAAATCGTGTACTAACCAGCACGGTTTTTGGGCTAAAAACGCGTTTCCT
65 TTGCAAAATTTTAGTCGAAATCGTGTACTAACCATCACTGTTTTT--GCTAAAAACGCGTTTCGG
** * *
68918 GGTTCCGGCTCAGTTTTGCATGATTTTTGGCTGAAAGACTCCTTGAAATATCTATATTCATCTAA
128 GGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAA
* * * *
68983 TCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAGCTTATGAATCTTGTTTCGATTT
193 CCAATTCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCTTCTGAATCTTGTTTCGATTT
* * * *
69048 AATTAGAAATAAATTCGGGAAAAATGGAAAAAAAAACGATATTAGAAGCGTAAAAAACCCTTTAA
258 AATTAGAAATTAATTCGGAAAAAATGG----AAAAACGATATTAGAAGCATGAAAAACCC-TTAA
69113 T-TTTTTTG-CG
318 TCTTTTTTGACG
*
69123 TTGAATTATACATTATTTCTGAGTATTGTGGCAAAGAATTGAGGAAAAAAATTTTCGGGTCAGTT
1 TTGAATTATATATTATTTCTGAGTATTGTGGCAAAGAATTGA-G-AAAAAATTTTCGGGTCAGTT
* * * *
69188 TTAGCAAAATTTTAGTCGAAATCGTGTACTAACCATCACAGTTTTTGCCAAAAACGC-ATTCTGG
64 TTTGCAAAATTTTAGTCGAAATCGTGTACTAACCATCACTGTTTTTGCTAAAAACGCGTTTC-GG
* *
69252 GGCCCCAGA-TCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTCAAATATCTATATTCATTTA
128 GGCCCC-GACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTA
* * * * * * * *
69316 ACCAAATCTCATCCACATTGAATTGAAGTATTTATTTTTACAAGATTCTGAATCTTGTTTCGATT
192 ACCAATTCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCTTCTGAATCTTGTTTCGATT
* * * ** * *
69381 TAATAAGTAATAAATTCGGGGAAAA---AAAAACGATATTAGAAGCGTGAAAAACCGTGTAAT-T
257 TAATTAGAAATTAATTCGGAAAAAATGGAAAAACGATATTAGAAGCATGAAAAACCCT-TAATCT
69442 TTTTTG-CG
321 TTTTTGACG
69450 TTGAATTATA
1 TTGAATTATA
69460 CAATTTTTTC
Statistics
Matches: 2426, Mismatches: 374, Indels: 295
0.78 0.12 0.10
Matches are distributed among these distances:
304 3 0.00
305 123 0.05
306 1 0.00
307 7 0.00
308 2 0.00
312 71 0.03
313 11 0.00
316 4 0.00
317 11 0.00
318 14 0.01
319 191 0.08
320 63 0.03
321 38 0.02
322 6 0.00
323 184 0.08
324 29 0.01
325 63 0.03
326 57 0.02
327 207 0.09
328 78 0.03
329 228 0.09
330 295 0.12
331 104 0.04
332 138 0.06
333 23 0.01
334 224 0.09
335 41 0.02
336 73 0.03
339 10 0.00
340 123 0.05
341 4 0.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (329 bp):
TTGAATTATATATTATTTCTGAGTATTGTGGCAAAGAATTGAGAAAAAATTTTCGGGTCAGTTTT
TGCAAAATTTTAGTCGAAATCGTGTACTAACCATCACTGTTTTTGCTAAAAACGCGTTTCGGGGC
CCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCA
ATTCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCTTCTGAATCTTGTTTCGATTTAAT
TAGAAATTAATTCGGAAAAAATGGAAAAACGATATTAGAAGCATGAAAAACCCTTAATCTTTTTT
GACG
Found at i:67455 original size:659 final size:651
Alignment explanation
Indices: 66256--69459 Score: 3972
Period size: 649 Copynumber: 4.9 Consensus size: 651
66246 ATTTGCAAAA
* * * * *
66256 TTTTAGTCGAAATCGTGTACTAATCATCACGGTTTTTGGGCTAAAAACGCGTTTCGGGGCCCCAG
1 TTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTT-GGATAAAAACGCGTTTCGGGGCCTCGG
* *
66321 CTCAGTTTTGCATTATTTTTTG-C-AGAAAGACTCCTTGAAATATCTATATTTATCTAACCAAAT
65 CTCAGTTTTGCATGA-TTTTTGACTAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAAT
* * *
66384 CTTAGTCACATTGGATTTAAGGATTTGTTTTTACGAGCTTCTGAATCTTATTTCGATTTAATTTG
129 CTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCTTCTGAATCTTATTTCGATTTAATTAG
* * ** *
66449 AAATAAATTCGGGAAAAATGGAAAAATGATATTAGAAGCATGAAAAACCCTTTACCTCTTTTGCG
194 AAATAAATTCGGGAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTTAATTTTTTTGCG
* * * *
66514 CTGAATTATATATATATTT-T-AGTATTGTGGCAAAGAATTGACGAAAAAATTTTCGGGTCAGTT
259 TTGAATTATACAT-TTTTTCTAAGTATTGTGGCAAAGAATTGA-GGAAAAATTTTCGGGTCAGTT
* * * * *
66577 TTTGCAAAATTTTAGTCGAAATCATGTACTAATCGTCACAATCTTTTTGCTAAAAACGCGTTCCG
322 TTAGCAAAATTTTAGTCGAAATCGTGTACTAACCATCAC-A-GTTTTTGCTAAAAACGCGTTCCG
* *
66642 GGGCCCCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGATTCCTTG-AATATCTATATTCATTTA
385 GGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATTTA
* *
66706 ACCAATTATCAACCACATTGGATTTAAGGATTTGTTTTTACGAGCAT-TTGAATCTTGTTTCGAT
450 ACCAATTCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTT-AATCTTGTTTCGAT
* * * * *
66770 TTAATTAAAAATTAATTCGGAAAAAATGGAAAAACAATTTTAGAAGCGTGAAAAACCCTTAAATC
514 TTAATTAAAAATTAAATCGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATC
** *
66835 TTTTTTTTGTTGAATTATATATCT-TTTATGAGTATTGTGGCAAAAAAATTGAGAATAAAAATTT
579 TTTTTGATGTTGAATTATATAT-TATTTCTGAGTATTGTGGC-AAAAAATTGAGAA-AAAAATTT
* *
66899 TTCAGGTCAGT
641 TTCAGATAAGT
* * *
66910 TTTTAGCCGAAATCGGGTACTAACCATCACGGTTTTTGAATAAAAACGCGTTTCGGGGCCTCGAC
1 TTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGATAAAAACGCGTTTCGGGGCCTCGGC
* * * * * *
66975 TCAGTTTAGCATGGTTTTTGACATAATAAAAACTCCTTAAAATATCTATATTCATCTACCCAAAT
66 TCAGTTTTGCATGATTTTTGAC-T-AGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAAT
* * * * *
67040 CTCAGCCACATTCGATTTAAGGATTTGTTTTTATGAGCTTCTAAATGTTGTTTCGATTTAAATT-
129 CTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCTTCTGAATCTTATTTCGATTT-AATTA
* *
67104 GAAATAAATTCGGGAAAAAATGGGAAAACGATATTAGAAGCATGAAAAA-CCTTTAATTTTCTTT
193 GAAATAAATTCGGG-AAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTTAATTTT-TTT
*
67168 GTC-TTGAATTATACATTTTTCTCTGAGTATTGTGGCAAAGAATTGAGGAAAAATTGTTCGGGTC
256 G-CGTTGAATTATACATTTTT-TCTAAGTATTGTGGCAAAGAATTGAGGAAAAATT-TTCGGGTC
* * * *
67232 AGTTTTTTGCAAAATTTTAGTCGAAATCGTGTACTAACCATCACGGTTTTTGCTGAAAACGCATT
318 AG-TTTTAGCAAAATTTTAGTCGAAATCGTGTACTAACCATCACAGTTTTTGCTAAAAACGCGTT
* * *
67297 TCGGGGCCCCGACTTAGTTTTGCATGATTTTTGGCAGAAAGACTTCTTGAAATATCTATATTCAT
382 CCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCAT
* *
67362 TTAACCAATTTTCAGCCACAATGGATTTAAGGATTTGTTTTTACGAGCATCTTAATCTTGTTTCG
447 TTAACCAATTCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTTAATCTTGTTTCG
*** ** **
67427 ATTTAATTTCTAATTAAATCGAAAAAAATGGAAAAACTTTATTAGAAGTATGAAAAACCCTTCAA
512 ATTTAATTAAAAATTAAATCGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAA
* * * *
67492 TATTTTTGACGTTGAATTATATATTATTTTTGAGTATTGTGGCAAAAAATTGA-AAAATAATTTT
577 TCTTTTTGATGTTGAATTATATATTATTTCTGAGTATTGTGGCAAAAAATTGAGAAAAAAATTTT
*
67556 TC-GTGTAAGT
642 TCAG-ATAAGT
* * * ***
67566 TTCTAGCCGAAATCGTG---TAACCATCATGGTGTTTGGGCA-AAAAACGCGTTTCATTGCCTCG
1 TTTTAGCCGAAATCGTGTACTAACCATCACGGT-TTTTGG-ATAAAAACGCGTTTCGGGGCCTCG
* * *
67627 GCTCAGTTTTGCATGA-TTTTGGCCAGAAAGACTCCCTGAAATATCTATATTCATCTAACCAAAT
64 GCTCAGTTTTGCATGATTTTTGACTAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAAT
* *** *
67691 CTAAGCCACATTGGATTTAAGGATTTACCTTTACGATCTTCTGAATCTTATTTCGATTTAATTAG
129 CTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCTTCTGAATCTTATTTCGATTTAATTAG
* *
67756 AAATAAGTTCGGGAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTATAATTTTTTTTTG
194 AAATAAATTCGGGAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTTAA--TTTTTTTG
* * * * * *
67821 CGTTAAATTATA-TTTTTTTCTAATTGTTGTGGCAAAGAATTGCGGAAAAAATTTTTGGGTCAGT
257 CGTTGAATTATACATTTTTTCTAAGTATTGTGGCAAAGAATTGAGG-AAAAATTTTCGGGTCAGT
* *
67885 TTTGGCAAAATTTTAGTTGAAATCGTGTACTAACCATCACAGTTTTTGCTAAAAACGCGTTCCGG
321 TTTAGCAAAATTTTAGTCGAAATCGTGTACTAACCATCACAGTTTTTGCTAAAAACGCGTTCCGG
*
67950 GGCCACGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATTTAA
386 GGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATTTAA
* * *
68015 CCAATTCTCAGCCATATTGGATTTAAGGATTTGTTTTTACGAGTATCTTAATCTTGTTTTGATTT
451 CCAATTCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTTAATCTTGTTTCGATTT
* * * * * ** *
68080 AATTAAAAAAT-AAT-TAAATAAAAAGGAAAAATGATATTAGAAGCGTGATAAATGCTTCGATCT
516 AATTAAAAATTAAATCGAAA-AAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATCT
*
68143 TTTTGATGTTGAATTATATATTATTTCTGAGTATTGTGGCAAAAAATTCG-GGAAAAAATTTTTC
580 TTTTGATGTTGAATTATATATTATTTCTGAGTATTGTGGCAAAAAATT-GAGAAAAAAATTTTTC
*
68207 AAATAAGT
644 AGATAAGT
* *
68215 TTTTAGCCGAAAATTGTGTACTAACAATCACGGTTTTTGG--------G-G---C----CCT-GG
1 TTTTAGCCG-AAATCGTGTACTAACCATCACGGTTTTTGGATAAAAACGCGTTTCGGGGCCTCGG
* * *
68263 CTCAGTTTTGCATGATTTTT-AGTAGAAAAACTCATTGAAATATCTATATTCATCTAACCAAATC
65 CTCAGTTTTGCATGATTTTTGACTAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATC
* * *
68327 TTAGCCACATTGGATTTAAGAATTTGTTTTTACTAGCTTCTGAATCTTATTTCGATTTAATTAGA
130 TCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCTTCTGAATCTTATTTCGATTTAATTAGA
*
68392 ATTAAATTCGGGAAAAAATGGAAAAAAAAAACGATATTAGAAGCGTGAAAAACCCTTTAATTTTT
195 AATAAATTCGGG-AAAAATGG-----AAAAACGATATTAGAAGCGTGAAAAACCCTTTAA-TTTT
* * *
68457 TTTGCGTTGAATTATACAATTTTTCTAAGTATTGTGGCAAAGAATTAAGGAAAAATTTTTTGGGT
253 TTTGCGTTGAATTATACATTTTTTCTAAGTATTGTGGCAAAGAATTGAGGAAAAA-TTTTCGGGT
* * * *
68522 CAGTTTTAGCAAAATTTTAGTCCAAATCGTGTACTAACCATAACGGTTTTTTTGCTAAATACGCG
317 CAGTTTTAGCAAAATTTTAGTCGAAATCGTGTACTAACCATCACAG--TTTTTGCTAAAAACGCG
* * * * *
68587 TTCCAAGGGGGCTCGGCTAAATTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATAT
380 TTCC--GGGGCCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATAT
* * *
68652 TCATTTAACCAATCCTCAGCCACAATGGATTTAAGGATTTGCTTTTACGAGCATCTTAATCTTGT
443 TCATTTAACCAATTCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTTAATCTTGT
* *
68717 TTCGATTTAATTAGAAATTAATTCGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCT
508 TTCGATTTAATTAAAAATTAAATCGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCT
** * * *
68782 TCAATCTTTAAGATGTTGAATTATATATTTTTTCTGAGTAATGTGGCAAAAAATTCAGAAAAAAC
573 TCAATCTTTTTGATGTTGAATTATATATTATTTCTGAGTATTGTGGCAAAAAATTGAGAAAAAA-
68847 A-TTTTCAGATAAGT
637 ATTTTTCAGATAAGT
* * ** *
68861 TTTTAGCCGAAATCGTGTACTAACCAGCACGGTTTTTGGGCTAAAAACGCGTTTCCTGG-TTCCG
1 TTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTT-GGATAAAAACGCGTTTCGGGGCCT-CG
* *
68925 GCTCAGTTTTGCATGATTTTTGGCT-GAAAGACTCCTTGAAATATCTATATTCATCTAATCAAAT
64 GCTCAGTTTTGCATGATTTTTGACTAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAAT
* * *
68989 CTCAACCACATTGGATTTAAGGATTTGTTTTTACGAGCTTATGAATCTTGTTTCGATTTAATTAG
129 CTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCTTCTGAATCTTATTTCGATTTAATTAG
*
69054 AAATAAATTCGGGAAAAATGGAAAAAAAAACGATATTAGAAGCGTAAAAAACCCTTTAATTTTTT
194 AAATAAATTCGGGAAAAATGG----AAAAACGATATTAGAAGCGTGAAAAACCCTTTAATTTTTT
* *
69119 TGCGTTGAATTATACATTATTTCTGAGTATTGTGGCAAAGAATTGAGGAAAAAAATTTTCGGGTC
255 TGCGTTGAATTATACATTTTTTCTAAGTATTGTGGCAAAGAATTGAGG--AAAAATTTTCGGGTC
* *
69184 AGTTTTAGCAAAATTTTAGTCGAAATCGTGTACTAACCATCACAGTTTTTGCCAAAAACGCATTC
318 AGTTTTAGCAAAATTTTAGTCGAAATCGTGTACTAACCATCACAGTTTTTGCTAAAAACGCGTTC
* *
69249 TGGGGCCCCAGA-TCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTCAAATATCTATATTCAT
383 CGGGGCCCC-GACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCAT
* * * * * * * *
69313 TTAACCAAATCTCATCCACATTGAATTGAAGTATTTATTTTTACAAG-ATTCTGAATCTTGTTTC
447 TTAACCAATTCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCA-TCTTAATCTTGTTTC
* *** *
69377 GATTTAA-TAAGTAA-TAAATTCGGGGAAAA---AAAAACGATATTAGAAGCGTGAAAAACCGTG
511 GATTTAATTAA-AAATTAAA-TCGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCT-
* *
69437 T-AATTTTTTTG-CGTTGAATTATA
573 TCAATCTTTTTGATGTTGAATTATA
69460 CAATTTTTTC
Statistics
Matches: 2214, Mismatches: 259, Indels: 155
0.84 0.10 0.06
Matches are distributed among these distances:
635 123 0.06
636 15 0.01
640 26 0.01
641 110 0.05
643 21 0.01
644 1 0.00
645 155 0.07
646 113 0.05
647 7 0.00
648 82 0.04
649 214 0.10
650 75 0.03
651 116 0.05
652 24 0.01
653 79 0.04
654 107 0.05
655 4 0.00
656 148 0.07
657 176 0.08
658 84 0.04
659 212 0.10
660 90 0.04
661 89 0.04
662 13 0.01
663 129 0.06
664 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (651 bp):
TTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGATAAAAACGCGTTTCGGGGCCTCGGC
TCAGTTTTGCATGATTTTTGACTAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCT
CAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCTTCTGAATCTTATTTCGATTTAATTAGAA
ATAAATTCGGGAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTTAATTTTTTTGCGTT
GAATTATACATTTTTTCTAAGTATTGTGGCAAAGAATTGAGGAAAAATTTTCGGGTCAGTTTTAG
CAAAATTTTAGTCGAAATCGTGTACTAACCATCACAGTTTTTGCTAAAAACGCGTTCCGGGGCCC
CGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATTTAACCAAT
TCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTTAATCTTGTTTCGATTTAATTA
AAAATTAAATCGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATCTTTTTGA
TGTTGAATTATATATTATTTCTGAGTATTGTGGCAAAAAATTGAGAAAAAAATTTTTCAGATAAG
T
Found at i:72087 original size:990 final size:987
Alignment explanation
Indices: 69521--73929 Score: 5939
Period size: 990 Copynumber: 4.5 Consensus size: 987
69511 CGCATTCTGG
* * * *
69521 GGCCCCGGATCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTCAAATATTTATATTCATCTAA
1 GGCCCCGGCTCAGTTTTGCATGATTTTTGGCTGAAAGACTCCTTGAAATATCTATATTCATCTAA
* ** * * * ** *
69586 CCAAATCTCATCCATATTGAATTTAAGGATTTATTTTTACAAGATTT-TGAATCTTGTTTCGATT
66 CCAAATCTCAGCCACCTCGGATTCAAGGATTTGGTTTTACGAG-TTTATGAATCTTGTTTCGATT
* ** * * **
69650 TAATTAGTAATAAATTCGGGAAAAAAATAAAAAAAAATGATATTAGAAGTGTGAAAAACCCTTTA
130 TAATTAGAAATAAATTCGGG---AAAATGGAAAAAAACGATATTAGAAGCGCCAAAAACCCTTTA
* *
69715 ATTTTTTTGCGTTCAATTATACATTTTTTCTGAGTATTGTGGCACAGAATTGAGGAACAAAAAAT
192 ATTTTTTTGCGTTGAATTATACATTTTTTCTGAGTATTGTGGCAAAGAATTGAGGAA-AAAAAAT
*
69780 TTCGGGTCAGTTTTGGCAAAATTTTAGTCGAAATCGTG---T-ACCATCACATTTTTTTTGCCAA
256 TTCGGGTCAGTTTTGGCAAAATTTTAGTCGAAATCGTGTACTAACCATCACA--GTTTTTGCCAA
* * *
69841 AAACGCATTCTAGGGCCCCGGATCAGTTTTGCACGATTTTTGGCAGAAAGACTTCTTCAAATATC
319 AAACGCATTCTGGGGCCCCGGATCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTCAAATATC
* *
69906 TATATTCATCTAACCAAATCTCATCCACATTGAATTTAAGGATTTATTTGTAAAAGATTTTGAAT
384 TATATTCATCTAACCAAATCTCATCCACATTGAATTTAAGGATTTATTTTTACAAGATTTTGAAT
* * * *** * *
69971 CTTGTTTCGATTTAAGTGGTAAAAAATTCGGGAAAAAAAAAAAAAAACGATTTTAGAAGCGTGAA
449 CTTGTTTCGATTTAATTAGTAATAAATTCGGGAAAAATGGAAAAAAACGATATAAGAAGCGTGAA
* * *
70036 AAACCCTTTAATTTTTCTCGCGTTGAATTATACATTATTTCTAAGTATTTTGGCAAAGAATTAAG
514 AAACCCTTTAATTTTTTTTGCGTTGAATTATACATTATTTCTAAGTATTGTGGCAAAGAATTAAG
* * * *
70101 GAAAATTTTTTTGGATCAGTTTTTACAAAATTTTAGTCCAAATCGTGTACTAA-CGATAACGTTT
579 GAAAAATTTTTTGGATCAGTTTTTGCAAAATTTTAGTCCAAATCATGTACTAATC-ATAACGGTT
*
70165 TTTTGCTAAATACGCGTTCCAAGGGGCCTCGGCTAAATTTTGCATAATTTTTGGCAGAAAGACTC
643 TTTTGCTAAATACGCGTTCCAAGGGGCCTCGGCTAAATTTTGCATGATTTTTGGCAGAAAGACTC
*
70230 CTTGAAATATCTATATTCATTTAACCAATCCTCAGCCACAATGGATTTAAGGATTTGCTTTTACG
708 CTTGAAATATCTATATTCATTTAACCAATCCTCAGCCACAATGGAATTAAGGATTTGCTTTTACG
* * * *
70295 AGCATCTTAATCTTGTTTCGATTTAATTAGAAATTAATTTG-AAAAAATGGAAAAATGTTATTAG
773 AGCATCTTAATCTTGTTTCGATTTAATTAAAAATTAATTCGAAAAAAATGGAAAAACGATATTAG
* * * * *
70359 AAGCGTGAAAAACCCTTCAATCTTTAGGACGTTGAATTATATATTTTTTATGAGTAATGTGTCAA
838 AAGCGTGAAAAA-ACTTCAATCTTTAAGACGTTGAATTATATATATTTTCTGAGTAATGTGGCAA
* * * *
70424 AAAATTCAGAAAAAATATTTTCAAATAAGTTTTTAGCCGAAATCGTGTATTAACCATCACAGTTT
902 AAAATTCAGAAAAAATATTTTCAGATCAGTTTTTAGCCGAAATCGTGTA-CAACCAGCACAGTTT
70489 TTGGGCTAAAAACGCGTTTCCT
966 TTGGGCTAAAAACGCGTTTCCT
*
70511 GGCCCCGACTCAGTTTTGCATGATTTTTGGCTGAAAGACTCCTTGAAATATCTATATTCATCTAA
1 GGCCCCGGCTCAGTTTTGCATGATTTTTGGCTGAAAGACTCCTTGAAATATCTATATTCATCTAA
* *
70576 CCAAATCTCAGGCACCTCGGATTCAAGGATTTGGTTTTACGAGTTTATGAATCTTATTTCGATTT
66 CCAAATCTCAGCCACCTCGGATTCAAGGATTTGGTTTTACGAGTTTATGAATCTTGTTTCGATTT
70641 AATTAGAAATAAATTCGGGAAAAATGGAAAAAAACGATATTAGAAGCGCCAAAAACCCTTTAATT
131 AATTAGAAATAAATTCGGG-AAAATGGAAAAAAACGATATTAGAAGCGCCAAAAACCCTTTAATT
*
70706 TTTTTGCGTTGAATTATACATTATTTCTGAGTATTGTGGCAAAGAATTGAGGAAAAAAAATTTTC
195 TTTTTGCGTTGAATTATACATTTTTTCTGAGTATTGTGGCAAAGAATTGAGGAAAAAAAA-TTTC
*
70771 GGGTCAGTTTTGGCAAAATTTTAGTCAAAATCGTGTACTAA--ATCACAGTTTTTGCCAAAAACG
259 GGGTCAGTTTTGGCAAAATTTTAGTCGAAATCGTGTACTAACCATCACAGTTTTTGCCAAAAACG
* *
70834 CATTCTGGGGCTCCGGATCATTTTTGCATGATTTTTGGCAGAAAGACTCCTTCAAATATCTATAT
324 CATTCTGGGGCCCCGGATCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTCAAATATCTATAT
*
70899 TCATCTAACCAAATCTCATCCACATTGAATTTAAGGATTTATTTCTACAAGATTTTGAATCTTGT
389 TCATCTAACCAAATCTCATCCACATTGAATTTAAGGATTTATTTTTACAAGATTTTGAATCTTGT
*
70964 TTTGATTTAATTAGTAATAAATTCGGGAAAAAATTGGAAAAAAACGATATAAGAAGCGTGAAAAA
454 TTCGATTTAATTAGTAATAAATTCGGG-AAAAA-TGGAAAAAAACGATATAAGAAGCGTG-AAAA
71029 ACCCTTTAATTTTTTTTGCGTTGAATTATACATTATTTCTAAGTATTGTGGCAAAGAATTAAGGA
516 ACCCTTTAATTTTTTTTGCGTTGAATTATACATTATTTCTAAGTATTGTGGCAAAGAATTAAGGA
* *
71094 AAAATTTTTTTGG-TCAATTTTTGCAAAATTTTAGTCCAAATCATGTACTAATCATGACGGTTTT
581 AAAA-TTTTTTGGATCAGTTTTTGCAAAATTTTAGTCCAAATCATGTACTAATCATAACGGTTTT
*
71158 TTGCTAAATACGTGTTCCAAGGGGCCTCGGCTAAATTTTGCATGATTTTTGGCAGAAAGACTCCT
645 TTGCTAAATACGCGTTCCAAGGGGCCTCGGCTAAATTTTGCATGATTTTTGGCAGAAAGACTCCT
*
71223 TGAAATAACTATATTCATTTAACCAATCCTCAGCCACAATGGAATTAAGGATTTGCTTTTACGAG
710 TGAAATATCTATATTCATTTAACCAATCCTCAGCCACAATGGAATTAAGGATTTGCTTTTACGAG
71288 CATCTTAATCTTGTTTCGATTTAATTAAAAATTAATTCGAAAAAAATGGAAAAACGATATTAGAA
775 CATCTTAATCTTGTTTCGATTTAATTAAAAATTAATTCGAAAAAAATGGAAAAACGATATTAGAA
* *
71353 GTGTGAAAAAACTTCCATCTTTAAGACGTTGAATTATATATATTTTCTGAGTAATGTGGCAAAAA
840 GCGTGAAAAAACTTCAATCTTTAAGACGTTGAATTATATATATTTTCTGAGTAATGTGGCAAAAA
* *
71418 ATTCAGAAAAAATATTTTCAGATCAGTTTTTAGCCAAAATCGTATACAACCAGCACAGTTTTTGG
905 ATTCAGAAAAAATATTTTCAGATCAGTTTTTAGCCGAAATCGTGTACAACCAGCACAGTTTTTGG
71483 GCT-AAAACGCGTTTCCT
970 GCTAAAAACGCGTTTCCT
* *
71500 GGCCCCGGCCCAGTTTTGCATGATATTTGGCTGAAAGACTCCTTGAAATATCTATATTCATCTAA
1 GGCCCCGGCTCAGTTTTGCATGATTTTTGGCTGAAAGACTCCTTGAAATATCTATATTCATCTAA
*
71565 CCAAATCTCAGGCACCTCGGATTCAAGGATTTGGTTTTACGAGTTTATGAATCTTGTTTCGATTT
66 CCAAATCTCAGCCACCTCGGATTCAAGGATTTGGTTTTACGAGTTTATGAATCTTGTTTCGATTT
71630 AATTAGAAATAAATTCGGGAAAATGGAAAAAAACGATATTAGAAGCGCCAAAAACCCTTTAATTT
131 AATTAGAAATAAATTCGGGAAAATGGAAAAAAACGATATTAGAAGCGCCAAAAACCCTTTAATTT
*
71695 TATTGCGTTGAATTATACATTTTTTCTGAGTATTGTGGCAAAGAATTGAGGAAAGAAAAATTTCG
196 TTTTGCGTTGAATTATACATTTTTTCTGAGTATTGTGGCAAAGAATTGAGGAAA-AAAAATTTCG
* *
71760 GGTCAGTTTTGGCAAAATTTTACTCGAAATCGTGTACTAACCATTACAGTTTTTGCCAAAAACGC
260 GGTCAGTTTTGGCAAAATTTTAGTCGAAATCGTGTACTAACCATCACAGTTTTTGCCAAAAACGC
*
71825 ATTCTGGGGCCCCGGATCAGTTTTGCACGATTTTTGGCAGAAAGACTCCTTCAAATATCTATATT
325 ATTCTGGGGCCCCGGATCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTCAAATATCTATATT
71890 CATCTAACCAAATCTCATCCACATTGAATTTAAGGATTTATTTTTACAAGATTTTGAATCTTGTT
390 CATCTAACCAAATCTCATCCACATTGAATTTAAGGATTTATTTTTACAAGATTTTGAATCTTGTT
* *
71955 TTGATTTAATTAGTAATAAATTCGGGAAAAATTTGGAAAAAAACGATATTAGAAGCGTGAATAAA
455 TCGATTTAATTAGTAATAAATTCGGGAAAAA--TGGAAAAAAACGATATAAGAAGCGTGAA-AAA
*
72020 CCCTTTAATTTTTTTTACGTTGAATTATACATTATTTCTAAGTATTGTGGCAAAGAATTAAGGAA
517 CCCTTTAATTTTTTTTGCGTTGAATTATACATTATTTCTAAGTATTGTGGCAAAGAATTAAGGAA
*
72085 AAA-TTTTTGGGTCAGTTTTTGCAAAATTTTAGTCCAAATCATGTACTAATCATAACGGTTTTTT
582 AAATTTTTTGGATCAGTTTTTGCAAAATTTTAGTCCAAATCATGTACTAATCATAACGGTTTTTT
*
72149 GCTAAATACGTGTTCCAAGGGGCCTCGGCTAAATTTTGCATGATTTTTGGCAGAAAGACTCCTTG
647 GCTAAATACGCGTTCCAAGGGGCCTCGGCTAAATTTTGCATGATTTTTGGCAGAAAGACTCCTTG
72214 AAATATCTATATTCATTTAACCAATCCTCAGCCACAATGGAATTAAGGATTTGCTTTTACGAGCA
712 AAATATCTATATTCATTTAACCAATCCTCAGCCACAATGGAATTAAGGATTTGCTTTTACGAGCA
*
72279 TCTTAATCTTGTTTCGATTTAATTAAAAATTAATTCGAAAAAAATGG-AAAACGATATTAGAAGT
777 TCTTAATCTTGTTTCGATTTAATTAAAAATTAATTCGAAAAAAATGGAAAAACGATATTAGAAGC
*
72343 GTGAAAAAACTTCCATCTTTAAGACGTTGAATTATATATATTTTCTGAGTAATGTGGCTAAAAAA
842 GTGAAAAAACTTCAATCTTTAAGACGTTGAATTATATATATTTTCTGAGTAATGTGGC-AAAAAA
72408 TTCAGAAAAAATATTTTCAGATCAGTTTTTAGCCGAAATCGTGTACAACCAGCACAGTTTTTGGG
906 TTCAGAAAAAATATTTTCAGATCAGTTTTTAGCCGAAATCGTGTACAACCAGCACAGTTTTTGGG
72473 CTAAAAACGCGTTTCCT
971 CTAAAAACGCGTTTCCT
*
72490 GGCCCCGGCCCAGTTTTGCATGATTTTTGGCTGAAAGACTCCTTGAAATATCTATATTCATCTAA
1 GGCCCCGGCTCAGTTTTGCATGATTTTTGGCTGAAAGACTCCTTGAAATATCTATATTCATCTAA
72555 CCAAATCTCAGCCACCTCGGATTCAAGGATTTGGTTTTACGAGTTTATGAATCTTGTTTCGATTT
66 CCAAATCTCAGCCACCTCGGATTCAAGGATTTGGTTTTACGAGTTTATGAATCTTGTTTCGATTT
72620 AATTAGAAATAAATTCGGGAAAATGGAAAAAAACGATATTAGAAGCGCCAAAAACCCTTTAATTT
131 AATTAGAAATAAATTCGGGAAAATGGAAAAAAACGATATTAGAAGCGCCAAAAACCCTTTAATTT
* *
72685 TTTTGCGTTGAATTATACATTATTTCTGAGTATTGTCGCAAAGAATTGAGGAAAAAAAATTTTCG
196 TTTTGCGTTGAATTATACATTTTTTCTGAGTATTGTGGCAAAGAATTGAGGAAAAAAAA-TTTCG
72750 GGTCAGTTTTGGCAAAATTTTAGTCGAAATCGTG---T---CATCACAGTTTTTGCCAAAAACGC
260 GGTCAGTTTTGGCAAAATTTTAGTCGAAATCGTGTACTAACCATCACAGTTTTTGCCAAAAACGC
* *
72809 ATTCTGGGTCCCCGGATCATTTTTGCATGATTTTTGGCAGAAAGACTCCTTCAAATATCTATATT
325 ATTCTGGGGCCCCGGATCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTCAAATATCTATATT
* *
72874 TATCTAACCAAATCTCATCCACATTGAATTTAAGTATTTATTTTTACAAGATTTTGAATCTTGTT
390 CATCTAACCAAATCTCATCCACATTGAATTTAAGGATTTATTTTTACAAGATTTTGAATCTTGTT
* * *
72939 TCCAATTAATTAGTAATAAATTC--G------GGAAAAAAACGATATAAGAAACGTGAAAAA-CC
455 TCGATTTAATTAGTAATAAATTCGGGAAAAATGGAAAAAAACGATATAAGAAGCGTGAAAAACCC
* * * * *
72995 TTT-A-TTTTTTTGCGTTGAATTATACCTTTTTTTTCTGAGTATTGTTGCAAAGAATTGAGGAAA
520 TTTAATTTTTTTTGCGTTGAATTATA-C-ATTATTTCTAAGTATTGTGGCAAAGAATTAAGGAAA
** * * * * * * * * *
73058 AAAATTTCGGTTCAGTTTTGGCAAAATTTTACTCGAAATCGTGTACTAAACATTACAG-TTTTTG
583 AATTTTTTGGATCAGTTTTTGCAAAATTTTAGTCCAAATCATGTACTAATCATAACGGTTTTTTG
* * * *** * * * * * *
73122 CCAAAAACGCATTCTGGGGGGCCCCGGATCAGTTTTGCACGATTTTTGGCAGAAAGACTCCTTCA
648 CTAAATACGCGTTCCAAGGGGCCTCGGCTAAATTTTGCATGATTTTTGGCAGAAAGACTCCTTGA
* * * * *
73187 AATATCTATATTCATCTAACCAAAT-CTCATCCAC-ATTGAATTTAAGGATTT-ATTTCTACAAG
713 AATATCTATATTCATTTAACC-AATCCTCAGCCACAATGGAA-TTAAGGATTTGCTTT-TACGAG
* * * ** * *
73249 -ATTTTGAATCTTGTTTTGATTGAATTAGTAATAAATTCGGGAAAAAATTGGAAAAAAACGATAT
775 CATCTT-AATCTTGTTTCGATTTAATTAAAAATTAATTC--GAAAAAAATGG--AAAAACGATAT
* * ** * * *
73313 TAGAAGCGTGAAAAAACCCTTTAATTTTTTTTG-CGTTGAATTATACAT-TATTTCTAAGTATTG
835 TAGAAGCGTGAAAAAA--CTTCAA-TCTTTAAGACGTTGAATTATATATAT-TTTCTGAGTAATG
* * * * * ** *
73376 TGGCAAAGAATTAAGGAAAAATTTTTTTGGTCAGTTTTTGCAAAATTTTAGTCC-AAATCATGTA
896 TGGCAAAAAATTCA-GAAAAA-ATATTT--TCAG---AT-C-AGTTTTTAG-CCGAAATCGTGTA
* ** * * * * *
73440 CTAATCATAACGGTTTTT-TGCTAAATACGTG-TTCCAAGG
951 C-AACCAGCACAGTTTTTGGGCTAAAAACGCGTTTCC---T
* * * * * *
73479 GGCCTCGGCTAAATTTTGCATGATTTTTGGCAGAAAGATTCCTTGAAATATCTATATTCATTTAA
1 GGCCCCGGCTCAGTTTTGCATGATTTTTGGCTGAAAGACTCCTTGAAATATCTATATTCATCTAA
* * * ** * *
73544 CC-AATCCTCAGCCACAAT-GGAATT-AAGGATTTGCTTTTACAAGCATCTTAATCTTGTTTCGA
66 CCAAAT-CTCAGCCAC-CTCGG-ATTCAAGGATTTGGTTTTACGAGTTTATGAATCTTGTTTCGA
* * ** * ** * **
73606 TTTAATTAAAAATTAATTCGAAAAAAATGG--AAAAACGATATTAGAAGTGTGAAAAA-ACTTCC
128 TTTAATTAGAAATAAATTCG-GGAAAATGGAAAAAAACGATATTAGAAGCGCCAAAAACCCTTTA
* ** * * * * *
73668 ATCTTTAAGACGTTGAATTATATATTTTTTCTGAGTAATGTGGCTAA-AATTCA-GAAAAAATAT
192 ATTTTTTTG-CGTTGAATTATACATTTTTTCTGAGTATTGTGGCAAAGAATTGAGGAAAAAAAAT
* ** * * * *
73731 TT----TCAG--AT--C-AGTTTTTAGCCGAAATCGTGTACTAACCAGCACGGTTTTTGGGCTAA
256 TTCGGGTCAGTTTTGGCAAAATTTTAGTCGAAATCGTGTACTAACCATCACAGTTTTT--GCCAA
* ** * *
73787 AAACGCGTTTCCT--GGCCCCGGCCCAGTTTTGCATGATTTTTGGCTGAAAGACTCCTTGAAATA
319 AAACGC-ATT-CTGGGGCCCCGGATCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTCAAATA
* * * * * * * * * *
73850 TCTTTATTCATCTAACCAAATCTCAGCCACCTCGGATTCAAGGATTTGTTTTTACGAGCTTATGA
382 TCTATATTCATCTAACCAAATCTCATCCACATTGAATTTAAGGATTTATTTTTACAAGATTTTGA
73915 ATCTTGTTTCGATTT
447 ATCTTGTTTCGATTT
73930 TCGGGTCAGT
Statistics
Matches: 3114, Mismatches: 239, Indels: 138
0.89 0.07 0.04
Matches are distributed among these distances:
970 19 0.01
971 14 0.00
972 166 0.05
973 51 0.02
974 35 0.01
976 17 0.01
977 26 0.01
978 9 0.00
979 41 0.01
980 9 0.00
981 4 0.00
982 16 0.01
984 288 0.09
985 6 0.00
986 15 0.00
987 48 0.02
988 585 0.19
989 603 0.19
990 752 0.24
991 368 0.12
992 42 0.01
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.35
Consensus pattern (987 bp):
GGCCCCGGCTCAGTTTTGCATGATTTTTGGCTGAAAGACTCCTTGAAATATCTATATTCATCTAA
CCAAATCTCAGCCACCTCGGATTCAAGGATTTGGTTTTACGAGTTTATGAATCTTGTTTCGATTT
AATTAGAAATAAATTCGGGAAAATGGAAAAAAACGATATTAGAAGCGCCAAAAACCCTTTAATTT
TTTTGCGTTGAATTATACATTTTTTCTGAGTATTGTGGCAAAGAATTGAGGAAAAAAAATTTCGG
GTCAGTTTTGGCAAAATTTTAGTCGAAATCGTGTACTAACCATCACAGTTTTTGCCAAAAACGCA
TTCTGGGGCCCCGGATCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTCAAATATCTATATTC
ATCTAACCAAATCTCATCCACATTGAATTTAAGGATTTATTTTTACAAGATTTTGAATCTTGTTT
CGATTTAATTAGTAATAAATTCGGGAAAAATGGAAAAAAACGATATAAGAAGCGTGAAAAACCCT
TTAATTTTTTTTGCGTTGAATTATACATTATTTCTAAGTATTGTGGCAAAGAATTAAGGAAAAAT
TTTTTGGATCAGTTTTTGCAAAATTTTAGTCCAAATCATGTACTAATCATAACGGTTTTTTGCTA
AATACGCGTTCCAAGGGGCCTCGGCTAAATTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAAT
ATCTATATTCATTTAACCAATCCTCAGCCACAATGGAATTAAGGATTTGCTTTTACGAGCATCTT
AATCTTGTTTCGATTTAATTAAAAATTAATTCGAAAAAAATGGAAAAACGATATTAGAAGCGTGA
AAAAACTTCAATCTTTAAGACGTTGAATTATATATATTTTCTGAGTAATGTGGCAAAAAATTCAG
AAAAAATATTTTCAGATCAGTTTTTAGCCGAAATCGTGTACAACCAGCACAGTTTTTGGGCTAAA
AACGCGTTTCCT
Found at i:74109 original size:205 final size:206
Alignment explanation
Indices: 73743--74128 Score: 517
Period size: 205 Copynumber: 1.9 Consensus size: 206
73733 TCAGATCAGT
* * * *
73743 TTTTAGCCGAAATCGTGTACTAACCAGCACGGTTTTTGGGCTAAAAACGCGTTTCCTGGCCCCGG
1 TTTTAGCCGAAATCGTGTACTAACCAGCACAGTTTTT-GGCCAAAAACGCGATTCCTGGCCCCAG
* * * * *
73808 CCCAGTTTTGCATGATTTTTGGCTGAAAGACTCCTTGAAATATCTTTATTCATCTAACCAAATCT
65 ACCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTCAAATATATATATTCATCTAACCAAATCT
* * * * *
73873 CAGCCACCTCGGATTCAAGGATTTGTTTTTACGAGCTTATGAATCTTGTTTCGATTTTCGGGTCA
130 CAGCCACATCGAATTCAAGGATTTATTTTTACAAGATTATGAATCTTGTTTCGATTTTCGGGTCA
73938 GTTTTGGCAAAA
195 GTTTTGGCAAAA
* *
73950 TTTTAGTCGAAATCGTGTACTAACCATCACAGTTTTT-GCCAAAAACGC-ATT-CTGGGGCCCCA
1 TTTTAGCCGAAATCGTGTACTAACCAGCACAGTTTTTGGCCAAAAACGCGATTCCT--GGCCCCA
* *
74012 GATCATTTTTGCATGATTTTTGGCAGAAAGACTCCTTCAAATATATATATTCATCTAACCAAATC
64 GACCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTCAAATATATATATTCATCTAACCAAATC
* * * * *
74077 TCATCCACATTGAATTTAAGTATTTATTTTTACAAGATTTTGAATCTTGTTT
129 TCAGCCACATCGAATTCAAGGATTTATTTTTACAAGATTATGAATCTTGTTT
74129 TGCTTTAATT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
203 2 0.01
204 2 0.01
205 116 0.75
207 34 0.22
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (206 bp):
TTTTAGCCGAAATCGTGTACTAACCAGCACAGTTTTTGGCCAAAAACGCGATTCCTGGCCCCAGA
CCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTCAAATATATATATTCATCTAACCAAATCTC
AGCCACATCGAATTCAAGGATTTATTTTTACAAGATTATGAATCTTGTTTCGATTTTCGGGTCAG
TTTTGGCAAAA
Done.