Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01018132.1 Corchorus olitorius cultivar O-4 contig18165, 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: 136096
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 1 characters in sequence are not A, C, G, or T
Found at i:6845 original size:30 final size:31
Alignment explanation
Indices: 6781--6846 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
6771 CCCCTACATT
* *
6781 AGGGGTAAATTGTCCTTAATTTGGAAAGTTC
1 AGGGGCAAATTGTCCTAAATTTGGAAAGTTC
6812 AGGGGCAAATTGTCCTAAATTTGGAAA-TTC
1 AGGGGCAAATTGTCCTAAATTTGGAAAGTTC
6842 AGGGG
1 AGGGG
6847 TAAGTTGTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
30 8 0.24
31 25 0.76
ACGTcount: A:0.30, C:0.11, G:0.29, T:0.30
Consensus pattern (31 bp):
AGGGGCAAATTGTCCTAAATTTGGAAAGTTC
Found at i:11782 original size:60 final size:60
Alignment explanation
Indices: 11696--11829 Score: 198
Period size: 60 Copynumber: 2.2 Consensus size: 60
11686 CTAATTGCTC
* * * **
11696 AAATAAGGGCTTAATGTTTGTCAAAATACTCAAATAAGGGTCTGATCTTTTAATTTGGTT
1 AAATAAGGGCCTAATGATTGTCAAAATACTCAAATAAGGGTCCGATCTTTTAATTTGGCA
*
11756 AAATAAGGGCCTAAT-ATTGTCAAAAATGCTCAAATAAGGGTCCGATCTTTTAATTTGGCA
1 AAATAAGGGCCTAATGATTGTC-AAAATACTCAAATAAGGGTCCGATCTTTTAATTTGGCA
11816 AAATAAGGGCCTAA
1 AAATAAGGGCCTAA
11830 CGTCATCGAA
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
59 5 0.07
60 62 0.93
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (60 bp):
AAATAAGGGCCTAATGATTGTCAAAATACTCAAATAAGGGTCCGATCTTTTAATTTGGCA
Found at i:11794 original size:31 final size:30
Alignment explanation
Indices: 11691--11795 Score: 86
Period size: 31 Copynumber: 3.5 Consensus size: 30
11681 GATGGCTAAT
* *
11691 TGCTCAAATAAGGGCTTAATGTTTGTCAAAA
1 TGCTCAAATAAGGGCCTAAT-ATTGTCAAAA
* * * * * **
11722 TACTCAAATAAGGGTCTGATCTT-TTAATT
1 TGCTCAAATAAGGGCCTAATATTGTCAAAA
* *
11751 TGGTTAAATAAGGGCCTAATATTGTCAAAAA
1 TGCTCAAATAAGGGCCTAATATTGTC-AAAA
11782 TGCTCAAATAAGGG
1 TGCTCAAATAAGGG
11796 TCCGATCTTT
Statistics
Matches: 53, Mismatches: 19, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
29 20 0.38
30 3 0.06
31 30 0.57
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (30 bp):
TGCTCAAATAAGGGCCTAATATTGTCAAAA
Found at i:11842 original size:60 final size:60
Alignment explanation
Indices: 11718--11843 Score: 171
Period size: 60 Copynumber: 2.1 Consensus size: 60
11708 AATGTTTGTC
* * ** * **
11718 AAAATACTCAAATAAGGGTCTGATCTTTTAATTTGGTTAAATAAGGGCCTAATATTGTCA
1 AAAATGCTCAAATAAGGGTCCGATCTTTTAATTTGGCAAAATAAGGGCCTAACATCATCA
* *
11778 AAAATGCTCAAATAAGGGTCCGATCTTTTAATTTGGCAAAATAAGGGCCTAACGTCATCG
1 AAAATGCTCAAATAAGGGTCCGATCTTTTAATTTGGCAAAATAAGGGCCTAACATCATCA
11838 AAAATG
1 AAAATG
11844 AAAATGCTCA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.30
Consensus pattern (60 bp):
AAAATGCTCAAATAAGGGTCCGATCTTTTAATTTGGCAAAATAAGGGCCTAACATCATCA
Found at i:12002 original size:60 final size:60
Alignment explanation
Indices: 11903--12066 Score: 231
Period size: 60 Copynumber: 2.7 Consensus size: 60
11893 TTTCGACGCT
* **
11903 GGGCCCTTATTTGAGCATTTTGGCAAACGTTAGGTCCTTATTTGGCCAAATTAAAAGATC
1 GGGCCCTTATTTGAGCATTTTGGCAAACATTAGACCCTTATTTGGCCAAATTAAAAGATC
* *
11963 GGGCTCTTATTTGAGCATTTTGGCAAACATTAGACCCTTATTTGGCCAAATTAAAAGATT
1 GGGCCCTTATTTGAGCATTTTGGCAAACATTAGACCCTTATTTGGCCAAATTAAAAGATC
* * * *
12023 AGACCCTTGTTTGAACATTTTGGCAAACATTA-AGCCCTTATTTG
1 GGGCCCTTATTTGAGCATTTTGGCAAACATTAGA-CCCTTATTTG
12067 AGCAATTATG
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
59 1 0.01
60 92 0.99
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (60 bp):
GGGCCCTTATTTGAGCATTTTGGCAAACATTAGACCCTTATTTGGCCAAATTAAAAGATC
Found at i:12006 original size:31 final size:31
Alignment explanation
Indices: 11968--12070 Score: 106
Period size: 31 Copynumber: 3.4 Consensus size: 31
11958 AGATCGGGCT
11968 CTTATTTGAGCATTTTGGCAAACATTAGACC
1 CTTATTTGAGCATTTTGGCAAACATTAGACC
** * *
11999 CTTATTTG-GCCAAATT--AAAAGATTAGACC
1 CTTATTTGAG-CATTTTGGCAAACATTAGACC
* *
12028 CTTGTTTGAACATTTTGGCAAACATTA-AGCC
1 CTTATTTGAGCATTTTGGCAAACATTAGA-CC
12059 CTTATTTGAGCA
1 CTTATTTGAGCA
12071 ATTATGCCTC
Statistics
Matches: 55, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
29 22 0.40
30 2 0.04
31 31 0.56
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (31 bp):
CTTATTTGAGCATTTTGGCAAACATTAGACC
Found at i:12027 original size:29 final size:29
Alignment explanation
Indices: 11938--12035 Score: 81
Period size: 29 Copynumber: 3.3 Consensus size: 29
11928 AACGTTAGGT
** *
11938 CCTTATTTGGCCAAATTAAAAGATCGGGC
1 CCTTATTTGGCCAAATTAAAAGATTAGAC
* ** * *
11967 TCTTATTTGAG-CATTTTGGCAAACATTAGAC
1 CCTTATTTG-GCCAAATT--AAAAGATTAGAC
11998 CCTTATTTGGCCAAATTAAAAGATTAGAC
1 CCTTATTTGGCCAAATTAAAAGATTAGAC
*
12027 CCTTGTTTG
1 CCTTATTTG
12036 AACATTTTGG
Statistics
Matches: 51, Mismatches: 14, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
29 30 0.59
30 2 0.04
31 19 0.37
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (29 bp):
CCTTATTTGGCCAAATTAAAAGATTAGAC
Found at i:29761 original size:26 final size:28
Alignment explanation
Indices: 29708--29762 Score: 69
Period size: 30 Copynumber: 2.0 Consensus size: 28
29698 GTTATCAATC
*
29708 AAGTTATGCTTATTTATCTTTGTTCAAAAA
1 AAGTTATGCTTATTTATC-TAG-TCAAAAA
29738 AAGTTATGCTTATTTATC-AG-CAAAA
1 AAGTTATGCTTATTTATCTAGTCAAAA
29763 CTTCAACCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 5 0.21
28 1 0.04
30 18 0.75
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (28 bp):
AAGTTATGCTTATTTATCTAGTCAAAAA
Found at i:39966 original size:25 final size:25
Alignment explanation
Indices: 39916--39966 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
39906 CTCCGTTTAG
*
39916 TAGAGCGGTACGGTAGCGATGTGAT
1 TAGAGCGGTACGGTAGCGATGCGAT
* * *
39941 TAGAGTGGTGCGGTAGCGGTGCGAT
1 TAGAGCGGTACGGTAGCGATGCGAT
39966 T
1 T
39967 GATACTGTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.20, C:0.12, G:0.43, T:0.25
Consensus pattern (25 bp):
TAGAGCGGTACGGTAGCGATGCGAT
Found at i:40005 original size:19 final size:19
Alignment explanation
Indices: 39981--40017 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
39971 CTGTTTAGCA
39981 ACTGTACAGATGAGATTAC
1 ACTGTACAGATGAGATTAC
*
40000 ACTGTACAGATTAGATTA
1 ACTGTACAGATGAGATTA
40018 GGTACTATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (19 bp):
ACTGTACAGATGAGATTAC
Found at i:42530 original size:46 final size:46
Alignment explanation
Indices: 42478--42568 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 46
42468 GCACAATTGA
*
42478 CTTACTTTAAAGTAATTCATGTCTTAATCAATCTCATGAAATAAGT
1 CTTACTTTAAAGTAATTCATGTCTTAATCAACCTCATGAAATAAGT
42524 CTTACTTTAAAGTAATTCATGTCTTAATCAACCTCATGAAATAAG
1 CTTACTTTAAAGTAATTCATGTCTTAATCAACCTCATGAAATAAG
42569 ATCATGTTCC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.37
Consensus pattern (46 bp):
CTTACTTTAAAGTAATTCATGTCTTAATCAACCTCATGAAATAAGT
Found at i:48834 original size:14 final size:14
Alignment explanation
Indices: 48815--48841 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
48805 TTGTCACTAT
48815 CTCCCCTGTTTTTC
1 CTCCCCTGTTTTTC
48829 CTCCCCTGTTTTT
1 CTCCCCTGTTTTT
48842 TGAAAGTAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.41, G:0.07, T:0.52
Consensus pattern (14 bp):
CTCCCCTGTTTTTC
Found at i:50105 original size:46 final size:46
Alignment explanation
Indices: 50040--50132 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
50030 TAGTAGAGTG
50040 GTGCGGTAGTAGTACGATTGACATTGTTTAGCAACTGTACAGATGA
1 GTGCGGTAGTAGTACGATTGACATTGTTTAGCAACTGTACAGATGA
*
50086 GTGCGGTAGTAGTGCGATTGACATTGTTTAGCAACTGTACAGATGA
1 GTGCGGTAGTAGTACGATTGACATTGTTTAGCAACTGTACAGATGA
50132 G
1 G
50133 ATTACACTGT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.30
Consensus pattern (46 bp):
GTGCGGTAGTAGTACGATTGACATTGTTTAGCAACTGTACAGATGA
Found at i:50797 original size:20 final size:19
Alignment explanation
Indices: 50768--50807 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
50758 ATGGTTGGTG
50768 TAAAAATTGAAATTGAAAA
1 TAAAAATTGAAATTGAAAA
*
50787 TAAAAACTTGAAATTTAAAA
1 TAAAAA-TTGAAATTGAAAA
50807 T
1 T
50808 TGATGTAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (19 bp):
TAAAAATTGAAATTGAAAA
Found at i:53568 original size:6 final size:6
Alignment explanation
Indices: 53557--53595 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
53547 TTCTCACAAA
53557 AATAGT AATAGT AATAGT AATAGT AATAGT AATAGT AAT
1 AATAGT AATAGT AATAGT AATAGT AATAGT AATAGT AAT
53596 TATATTAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.15, T:0.33
Consensus pattern (6 bp):
AATAGT
Found at i:54721 original size:16 final size:15
Alignment explanation
Indices: 54700--54738 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
54690 ACTTAAGCCC
* *
54700 AAAAGAAAAGAGAGGA
1 AAAAGAAAAAAGA-AA
54716 AAAAGAAAAAAGAAA
1 AAAAGAAAAAAGAAA
54731 AAAAGAAA
1 AAAAGAAA
54739 TCTCTTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAAGAAA
Found at i:74441 original size:19 final size:19
Alignment explanation
Indices: 74417--74453 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
74407 GTACAGTACC
74417 TAATCTAATCTCTACAGTG
1 TAATCTAATCTCTACAGTG
* *
74436 TAATCTCATCTGTACAGT
1 TAATCTAATCTCTACAGT
74454 ACTTAAACAG
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:0.30, C:0.22, G:0.11, T:0.38
Consensus pattern (19 bp):
TAATCTAATCTCTACAGTG
Found at i:75025 original size:21 final size:21
Alignment explanation
Indices: 74999--75038 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
74989 ATGAAATTAC
*
74999 ACTGTACAGATTAGATTATGT
1 ACTGTACAGATAAGATTATGT
75020 ACTGTACAGATAAGATTAT
1 ACTGTACAGATAAGATTAT
75039 TAGAGCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (21 bp):
ACTGTACAGATAAGATTATGT
Found at i:83191 original size:15 final size:15
Alignment explanation
Indices: 83171--83207 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
83161 CAAGGAAGAG
83171 AGTCAAGTAATTACT
1 AGTCAAGTAATTACT
* *
83186 AGTCAACTACTTACT
1 AGTCAAGTAATTACT
83201 AGTCAAG
1 AGTCAAG
83208 ACCAGTACAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.30
Consensus pattern (15 bp):
AGTCAAGTAATTACT
Found at i:90422 original size:19 final size:19
Alignment explanation
Indices: 90386--90443 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
90376 CTGTTTAGAT
* *
90386 ACTGTATAGATGAGATTAC
1 ACTGTACAGATGAAATTAC
* *
90405 ACTGTACAGATTAAATTAGG
1 ACTGTACAGATGAAATTA-C
*
90425 TCTTGTACAGATGAAATTA
1 AC-TGTACAGATGAAATTA
90444 TTAGAACAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
19 15 0.48
20 1 0.03
21 15 0.48
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (19 bp):
ACTGTACAGATGAAATTAC
Found at i:94255 original size:6 final size:6
Alignment explanation
Indices: 94244--94279 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
94234 GATGATACCC
* *
94244 ACCCAA ACCCAA ACCCAA ATCCAA ATCCAA ACCCAA
1 ACCCAA ACCCAA ACCCAA ACCCAA ACCCAA ACCCAA
94280 GCCAGCAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.50, C:0.44, G:0.00, T:0.06
Consensus pattern (6 bp):
ACCCAA
Found at i:114540 original size:92 final size:91
Alignment explanation
Indices: 114425--114613 Score: 353
Period size: 92 Copynumber: 2.1 Consensus size: 91
114415 AGTTTAATTT
114425 GTAAT-TTTTTTGTTTATTTATTTGGTTTATAGATAGGTATAGTTTTTAGGTTCAAGAGCAGATG
1 GTAATGTTTTTTGTTTATTTATTTGGTTTATAGATAGGTATAGTTTTTAGGTTCAAGAGCAGATG
114489 TTATGAGATCATAGATTAGTGTTTCG
66 TTATGAGATCATAGATTAGTGTTTCG
*
114515 GTAATGTTTGTTTGTTTGTTTATTTGGTTTATAGATAGGTATAGTTTTTAGGTTCAAGAGCAGAT
1 GTAATGTTT-TTTGTTTATTTATTTGGTTTATAGATAGGTATAGTTTTTAGGTTCAAGAGCAGAT
114580 GTTATGAGATCATAGATTAGTGTTTCG
65 GTTATGAGATCATAGATTAGTGTTTCG
114607 GTAATGT
1 GTAATGT
114614 AGCTAATGAT
Statistics
Matches: 96, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
90 5 0.05
91 3 0.03
92 88 0.92
ACGTcount: A:0.25, C:0.04, G:0.24, T:0.47
Consensus pattern (91 bp):
GTAATGTTTTTTGTTTATTTATTTGGTTTATAGATAGGTATAGTTTTTAGGTTCAAGAGCAGATG
TTATGAGATCATAGATTAGTGTTTCG
Found at i:114681 original size:42 final size:42
Alignment explanation
Indices: 114618--114701 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
114608 TAATGTAGCT
* * *
114618 AATGATCAGTGTTTCGGTAATATAGCTAATCATTTAGCGGTG
1 AATGATCAGTGTTTCGATAATATAACTAATCATATAGCGGTG
*
114660 AATGATCAGTGTTTCGATAATATAATTAATCATATAGCGGTG
1 AATGATCAGTGTTTCGATAATATAACTAATCATATAGCGGTG
114702 TACGGATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (42 bp):
AATGATCAGTGTTTCGATAATATAACTAATCATATAGCGGTG
Found at i:119920 original size:31 final size:31
Alignment explanation
Indices: 119885--120007 Score: 156
Period size: 31 Copynumber: 4.0 Consensus size: 31
119875 TTTGTGCACG
**
119885 TGGCATGCCATGTGTCACTTTTTGAAACACA
1 TGGCATGCCACATGTCACTTTTTGAAACACA
**
119916 TGGCATGCCATGTGTCACTTTTTGAAACACA
1 TGGCATGCCACATGTCACTTTTTGAAACACA
* **
119947 TGGCATGCCACATGTCACTTTTGGGTACACA
1 TGGCATGCCACATGTCACTTTTTGAAACACA
** *
119978 TGGCATGATACATGTCACTTTTTGATACAC
1 TGGCATGCCACATGTCACTTTTTGAAACAC
120008 GTGATGTGCC
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 83 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.33
Consensus pattern (31 bp):
TGGCATGCCACATGTCACTTTTTGAAACACA
Found at i:120054 original size:31 final size:31
Alignment explanation
Indices: 119881--120068 Score: 135
Period size: 31 Copynumber: 6.1 Consensus size: 31
119871 TCCTTTTGTG
* ** **
119881 CACGTGGCATGCCATGTGTCACTTTTTGAAA
1 CACGTGGCATGCTACATGTCACTTTTTGGTA
* * ** **
119912 CACATGGCATGCCATGTGTCACTTTTTGAAA
1 CACGTGGCATGCTACATGTCACTTTTTGGTA
* * *
119943 CACATGGCATGCCACATGTCACTTTTGGGTA
1 CACGTGGCATGCTACATGTCACTTTTTGGTA
* * *
119974 CACATGGCATGATACATGTCACTTTTTGATA
1 CACGTGGCATGCTACATGTCACTTTTTGGTA
*** *
120005 CACGTGATGTGCCT-CATGTCGCTTTTTGGTA
1 CACGTGGCATG-CTACATGTCACTTTTTGGTA
* * **
120036 TACGTGGCGTGCTACATGTTGCTTTTTGGTA
1 CACGTGGCATGCTACATGTCACTTTTTGGTA
120067 CA
1 CA
120069 TATGGCAAGC
Statistics
Matches: 133, Mismatches: 22, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
30 2 0.02
31 130 0.98
32 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (31 bp):
CACGTGGCATGCTACATGTCACTTTTTGGTA
Found at i:120802 original size:3 final size:3
Alignment explanation
Indices: 120796--120833 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
120786 CTATTATTAT
* *
120796 ATA ATA ATA ATA ATA ATA A-A AAA ATA ACA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
120834 TAGTTTGGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:134145 original size:330 final size:329
Alignment explanation
Indices: 132440--136095 Score: 4191
Period size: 331 Copynumber: 11.3 Consensus size: 329
132430 TTTTAAAATG
* * * *
132440 AATTTCTAATAAAATCGAAAAAAAATTTTGATGCTCGAAAAAACAAATCCTTAAATCCAATGTGG
1 AATTTCTAATAAAATCGAAACAAGATTCTGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGG
* * * *
132505 CTGAAATTTTGTTGGATGACTATAGATTATTT-AAGGAGTCTTGGCGCCAAAAATCATGCAAAAC
66 CTGAGATTTGGTTAGATGAATATAGATT-TTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAAC
* * * * * * * *
132569 TGAG-CCGGATTCCATGAACGCGTTTTTAGCCAAATATCGTGATAGTTAGTACACGATTTCGGCT
130 TGAGTCGGGA-CCCAGGAATGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCAGCT
* * *
132633 AAAAGTTTGCAAAAATTGAACCGAAAGATTTTTCAC-C-AATTTTAGCCACAATAATCATAGAAA
194 AAAATTTTACAAAAATTGACCCGAAAGATTTTTC-CTCAAATTTTAGCCACAATAATCATAGAAA
* * * * * * * * *
132696 TATATAATTCAACGTAAAAAAGATTGAATGACATTTCATGCCTCTAATATTGTTTTTCCTTTTTT
258 TATATAATTCAACATCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATA--CTTTTTCCATTTTT
132761 TATCTGAATT
321 T-TCTGAATT
* *
132771 AATTTCTAATAAAATCGAAATAAGATTCTGATGCTCGTAAAAACAAATCATTAAATCCAATGTGG
1 AATTTCTAATAAAATCGAAACAAGATTCTGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGG
* ** * * *
132836 CTGAGATTTGTTTAGATGAATATAGATAATTCAAGGAGTCTTGGCGCCAAAAATTATTCAAAACC
66 CTGAGATTTGGTTAGATGAATATAGATTTTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACT
* * * * * *
132901 GAGCCGGGGCCAAGG-ATCGCATTTTTAGGCAAAAACCGTGATGGTTAGCACACGATTTCAGCTA
131 GAGTCGGGACCCAGGAAT-GCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCAGCTA
* * * * * * * *
132965 AAATTTTGCAAAAATTAATCTGAAATATTTTTTCTCAATTTTTAGCCACAATTATCATAGAAATA
195 AAATTTTACAAAAATTGACCCGAAAGATTTTTCCTCAAATTTTAGCCACAATAATCATAGAAATA
* * * ***
133030 TAAAATTCAACGTAAAAAAGATTGAAGGG----T----CTT-T--T--TTTTT-C-TTTTTTAAA
260 TATAATTCAACATCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATACTTTTTCCATTTTTTTCT
*
133080 AAAGTT
325 GAA-TT
* * *
133086 AATTTCTAATAAAATTGAAACAAGATTTTGATGCTTGTAAAAACAAATCCTTAAATCCAATGTGG
1 AATTTCTAATAAAATCGAAACAAGATTCTGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGG
* *
133151 CTGAGATTTGTTTAGATGAATATAGATTTTTTAAGGAGTCTTGGCGCCAAAAATCATGCAAAACT
66 CTGAGATTTGGTTAGATGAATATAGATTTTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACT
*
133216 GAGTCGGGACCCAGGAATGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCAGCTTA
131 GAGTCGGGACCCAGGAATGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCAGCTAA
* * *
133281 AATTTTACAAAAATTGGCCAGAAAGATTTTTCCTCAAATTTTAGCTACAATAATCATAGAAATAT
196 AATTTTACAAAAATTGACCCGAAAGATTTTTCCTCAAATTTTAGCCACAATAATCATAGAAATAT
* * * *
133346 ATAATTCAACATAAAAAAGATTGAAGGGTTTTTCACGCTTCTAATATTGTTTTTACAATTTTTTT
261 ATAATTCAACATCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATA--CTTTTT-CCATTTTTTT
133411 -T-AATT
323 CTGAATT
*
133416 AATTTCTAATAAAGTCGAAACAAGATTCTGATGCTCG--------------T--ATCCAATGTGG
1 AATTTCTAATAAAATCGAAACAAGATTCTGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGG
* *
133465 CTGAGATTTGGTTATATGAATATAGATTTTTCAAGGAGTCTTGGCGCAAAAAATCATGCAAAACT
66 CTGAGATTTGGTTAGATGAATATAGATTTTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACT
* *
133530 GAGTCGGGACCCAGGAATGCGTTTTTAGCCAAAAACCGTGA-CG-TA-T--ATGATTTCAGCTAA
131 GAGTCGGGACCCAGGAATGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCAGCTAA
* *
133590 AATTTTACAAAAATTGACCCGAAAGATTTTTCCATAAAATTTTAGCCACAGTAATCATAGAAATA
196 AATTTTACAAAAATTGACCCGAAAGATTTTTCC-TCAAATTTTAGCCACAATAATCATAGAAATA
* *
133655 TATAATTCAACATCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTACA-TTTCTT
260 TATAATTCAACATCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATA-C-TTTTTCCATTTTTTT
133719 -T-AATT
323 CTGAATT
* * * *
133724 AATTTCTAATAAAGTCGAAACAAGATTTTGATGCTTGTAAAAACAAATCCTTAAATCCATTGTGG
1 AATTTCTAATAAAATCGAAACAAGATTCTGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGG
133789 CTGAGATTTGGTTAGATGAATATAGATTTTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACT
66 CTGAGATTTGGTTAGATGAATATAGATTTTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACT
*
133854 GAGTCGGGACCCAGGAATGCGTTTTTAGCCAAAAATCGTGATGGTTAGTACACGATTTCAGCTAA
131 GAGTCGGGACCCAGGAATGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCAGCTAA
* *
133919 AA-TTTACAAAAATTGACCCGAGAGATATTTCCTCAAATTTTAGCCACAATAATCATAGAAATAT
196 AATTTTACAAAAATTGACCCGAAAGATTTTTCCTCAAATTTTAGCCACAATAATCATAGAAATAT
* * *
133983 ATAATGCAACATCAAAAAGATTGAAGGGCTTGTCACGCTTCTAATACCTTTTCTCCATTTCTTTC
261 ATAATTCAACATCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATA-CTTTT-TCCATTTTTTTC
*
134048 TGAATG
324 TGAATT
* *
134054 AATTTCTAATAAAATCGAAACAAGATTCTGATGCTCGTAAAAACAAATCCTTAAATCCAATTTCG
1 AATTTCTAATAAAATCGAAACAAGATTCTGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGG
* * *
134119 CTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGAG-TCCAAAAATCATGCAAAAT
66 CTGAGATTTGGTTAGATGAATATAGATTTTTCAAGGAGTCTTG-GCGCCAAAAATCATGCAAAAC
* * * ** ** *
134183 TGAG-CCGGATTCTAGGAACACGTTTTTAGCCAAAAACCGTGATAATTAGTATC-CGGTTTCAGC
130 TGAGTCGGGA-CCCAGGAATGCGTTTTTAGCCAAAAACCGTGATGGTTAGTA-CACGATTTCAGC
* * * * * *
134246 TAAAATTTTGCAAAAATTTATCCGAAATATTTTTCCTCAATTTTTAGCCACAATTATCATAGAAA
193 TAAAATTTTACAAAAATTGACCCGAAAGATTTTTCCTCAAATTTTAGCCACAATAATCATAGAAA
134311 TATATAATTCAACATCAAAAAGATT-ATAGGG----T--CG-------------TT---TTTTTT
258 TATATAATTCAACATCAAAAAGATTGA-AGGGCTTTTCACGCTTCTAATACTTTTTCCATTTTTT
* *
134353 T-TAAATG
322 TCTGAATT
* * * *
134360 AATTTCTAATAAAATCGAAAAAAGATTATGATGCTCGAAAAAATAAATCCTTAAATCCAATGTGG
1 AATTTCTAATAAAATCGAAACAAGATTCTGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGG
* ** *
134425 CTGAGATTTGGTTGGATGGCTACAGATTGTTT-AAGGAGTCTTGGCGCCAAAAATCATGCAAAAC
66 CTGAGATTTGGTTAGATGAATATAGATT-TTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAAC
* * * * * *
134489 TGAG-CCGGAGCCCATGAACGCGTTTTTAGACAAATATCGTGATGGTTAGTACACGATTTCAGCT
130 TGAGTCGGGA-CCCAGGAATGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCAGCT
* * * * * * *
134553 AAAATTTTCCAAAAAATGATCGGAAAGATTTTTCAC-CAATTTTTAGTCACAATAATCATAGGAA
194 AAAATTTTACAAAAATTGACCCGAAAGATTTTTC-CTCAAATTTTAGCCACAATAATCATAGAAA
* * * * * *
134617 TATATAATTCAA-AGTAAAAAAGATTGAATGACTTTTCATGCCTCTAATATTGTTTTTCCATTTT
258 TATATAATTCAACA-TCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATA--CTTTTTCCA-TTT
*
134681 TTTATCTAAATT
319 TTT-TCTGAATT
* * * * * * *
134693 AATTTCAAATAAAATTGTAATAAGATTCCGATGCTCGTAAAACCATATCCTTAAATCCAATGTGG
1 AATTTCTAATAAAATCGAAACAAGATTCTGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGG
** * ** *
134758 CTGAGATTT-GTCTAGATGAATATAGATAATTCAAGGAGTGTTGGTTCCAAAAATCATTCAAAAC
66 CTGAGATTTGGT-TAGATGAATATAGATTTTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAAC
* * * * * * * *
134822 CGAGCCGTGACTCAAG-AT-CGTATTTTTAGCAAAAAAACGTGATGATTAGTACACGATTTCAGC
130 TGAGTCGGGACCCAGGAATGCG--TTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCAGC
* * * * ** * * * *
134885 TAAAATATTGCAAAAATTAATCCG-AAGTATTTTTCCTTGATTTTTAGCAACAATCACCATAGAA
193 TAAAATTTTACAAAAATTGACCCGAAAG-ATTTTTCCTCAAATTTTAGCCACAATAATCATAGAA
134949 ATATATAATTCAACAT-AAAAATGATTGAAGGG----TCA---TT-T--T--TTTTT-C-TTTTA
257 ATATATAATTCAACATCAAAAA-GATTGAAGGGCTTTTCACGCTTCTAATACTTTTTCCATTTT-
****
134999 TTAAAAAAATT
320 TT-TCTGAATT
* * *
135010 AATTTCTAATAAAATTGAAACAAGATTTTGATGCTCGTAAAAACAAATCTTTAAATCCAATGTGG
1 AATTTCTAATAAAATCGAAACAAGATTCTGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGG
* * * *
135075 TTGAGATTTGGTTAGATGAATATAGATTTTTCAAGAAGTCTTGGTGCCAAAAATCATGTAAAACT
66 CTGAGATTTGGTTAGATGAATATAGATTTTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACT
* * * * * *
135140 GAATCAGGACCCAGGACTGCATTTTTAGCGAAAAACCGTGTTGGTTAGTACACGATTTCAGCTAA
131 GAGTCGGGACCCAGGAATGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCAGCTAA
* * *
135205 AATTTTATAAAAATTGACCCGAAAGATTTGTCCTCAAATTTTAGCCATAATAATCATAGAAATAT
196 AATTTTACAAAAATTGACCCGAAAGATTTTTCCTCAAATTTTAGCCACAATAATCATAGAAATAT
* *
135270 ATAATTCAACATCAAAAATATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTACA-TTTTTT-
261 ATAATTCAACATCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATA-C-TTTTTCCATTTTTTTC
135333 TGAATT
324 TGAATT
* * * *
135339 AATTTCTAATAAAGTCGAAACAAGATTTTGATGCTTGTAAAAACAAATCCTTAAATCCACTGTGG
1 AATTTCTAATAAAATCGAAACAAGATTCTGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGG
* *
135404 CTGAGATTTGGTTAGATGAATATGGATTTTTCAAGGAATCTTGGCGCCAAAAATCATGCAAAACT
66 CTGAGATTTGGTTAGATGAATATAGATTTTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACT
* *
135469 GAGTC-GGACCTAGGAATGCGTTTTTAGGCAAAAACCGTGATGGTTAGTACACGATTTCAGCTAA
131 GAGTCGGGACCCAGGAATGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCAGCTAA
135533 AATTTTACAAAAATTGACCCGAAAGATTTTTCCTCAAATTTTAGCCACAATAATCATAGAAATAT
196 AATTTTACAAAAATTGACCCGAAAGATTTTTCCTCAAATTTTAGCCACAATAATCATAGAAATAT
* *
135598 ATAATTCAACATCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTCAATTTTTTTTC
261 ATAATTCAACATCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATA-CTTTTTCCA-TTTTTTTC
135663 TGAATT
324 TGAATT
* * *
135669 AGTTTCTAATAAAATAGAAACAAGATTCCGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGG
1 AATTTCTAATAAAATCGAAACAAGATTCTGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGG
* * * * * *
135734 CTGATATTTGATTAGATGAATATAAATTTTTCAAGGAGTCTTGGCACCAAAAATCTTGCAAAACA
66 CTGAGATTTGGTTAGATGAATATAGATTTTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACT
* *
135799 GAGTCGGGACCCAGGAATGCCTTTTTAGCCAAAAACCGTGTTGGTTAGTACACGATTTCAGCTAA
131 GAGTCGGGACCCAGGAATGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCAGCTAA
* * *
135864 AATTTTACAAAAATTGACCCGAAAGATTTTTACTCAAATATTAGCCACAATAATCATAGAAATTT
196 AATTTTACAAAAATTGACCCGAAAGATTTTTCCTCAAATTTTAGCCACAATAATCATAGAAATAT
* * * * *
135929 ATAATGCAACATCAAAAATATTGAAGGGCTTCTCAAGCTTCTAATATCGTTTTCCATTTTTTTTC
261 ATAATTCAACATCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATA-CTTTTTCCA-TTTTTTTC
135994 TGAATT
324 TGAATT
* * * * * *
136000 AGTTTCTAATAAAAACGATATAAGATTCCGATGCTCGTAAAAATAAATCCTTAAATCCAATGTGG
1 AATTTCTAATAAAATCGAAACAAGATTCTGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGG
*
136065 CTGAGATGTGGTTAGATGAATATAGATTTTT
66 CTGAGATTTGGTTAGATGAATATAGATTTTT
136096 G
Statistics
Matches: 2860, Mismatches: 340, Indels: 250
0.83 0.10 0.07
Matches are distributed among these distances:
305 3 0.00
306 244 0.09
307 11 0.00
308 45 0.02
309 45 0.02
310 80 0.03
311 2 0.00
312 3 0.00
313 1 0.00
314 115 0.04
315 263 0.09
316 8 0.00
317 241 0.08
318 12 0.00
319 7 0.00
321 4 0.00
322 1 0.00
323 5 0.00
324 118 0.04
325 5 0.00
326 8 0.00
327 88 0.03
328 195 0.07
329 156 0.05
330 344 0.12
331 553 0.19
332 74 0.03
333 225 0.08
334 4 0.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (329 bp):
AATTTCTAATAAAATCGAAACAAGATTCTGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGG
CTGAGATTTGGTTAGATGAATATAGATTTTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACT
GAGTCGGGACCCAGGAATGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCAGCTAA
AATTTTACAAAAATTGACCCGAAAGATTTTTCCTCAAATTTTAGCCACAATAATCATAGAAATAT
ATAATTCAACATCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATACTTTTTCCATTTTTTTCTG
AATT
Found at i:135859 original size:659 final size:647
Alignment explanation
Indices: 132170--136095 Score: 4136
Period size: 645 Copynumber: 6.1 Consensus size: 647
132160 TCATCATCGT
* * * * *
132170 AAATCCTTAAATCCAATTTGGTTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGA
1 AAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATTTTTCAAGGAATCTTGG
* * * ** * * *
132235 CTCCAAAAATCATGAAAAACTGAGCCG-GGGTCCAAGAATACG-TTTTTAGCCAAAAACCGCGAT
66 CGCCAAAAATCATGCAAAACCGAGCCGTGACT-CAAG-AT-CGATTTTTAGCAAAAAAACGTGAT
* ** * * * * *
132298 GGTTAGTATTCGATTTCAGCTAAAATTTTACAAAAATTTATCCAAAGTATTTTTCCTCAATTTTT
128 GATTAGTACACGATTTCAGCTAAAATATTACAAAAATTAACCCGAAGTATTTTTCCTCAAATTTT
* * * * * * *
132363 AGCCACAATTATCATAGAAATATATAATTCAACGTCAAAAA-GATTAAAGGGTCGTTTTTCTTTA
193 AGCAACAATAACCATAGAAATATATAATTCAACAT-AAAAATGATTGAAGGGTCATTTTT-TTTT
* * * * * * *
132427 ATTTT-TT---AAAATGAATTTCTAATAAAATCGAAAAAAAATTTTGATGCTCGAAAAAACAAAT
256 CTTTTATTAAAAAAATTAATTTCTAATAAAATAGAAACAAGATTATGATGCTCGTAAAAACAAAT
* * * *
132488 CCTTAAATCCAATGTGGCTGAAATTTTGTTGGATGACTATAGATTATTT-AAGGAGTCTTGGCGC
321 CCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATT-TTTCAAGGAGTCTTGGCGC
* * * * * * * * *
132552 CAAAAATCATGCAAAACTGAG-CCGGATTCCATGAACGCGTTTTTAGCCAAATATCGTGATAGTT
385 CAAAAATCATGCAAAACTGAGTCAGGA-CCCAGGAATGCATTTTTAGCCAAAAACCGTGTTGGTT
* * * *
132616 AGTACACGATTTCGGCTAAAAGTTTGCAAAAATTGAACCGAAAGATTTTTCAC-C-AATTTTAGC
449 AGTACACGATTTCAGCTAAAATTTTACAAAAATTGACCCGAAAGATTTTTC-CTCAAATTTTAGC
* * * * * * * *
132679 CACAATAATCATAGAAATATATAATTCAACGTAAAAAAGATTGAATGACATTTCATGCCTCTAAT
513 CACAATAATCATAGAAATATATAATTCAACATCAAAAATATTGAAGGGCTTTTCAAGCTTCTAAT
* * *
132744 ATTGTTTTTCCTTTTTTTATCTGAATTAATTTCTAATAAAATCGAAATAAGATTCTGATGCTCGT
578 ATCGTTTTTCCATTTTTT-TCTGAATTAATTTCTAATAAAATCGAAATAAGATTCCGATGCTCGT
132809 AAAAAC
642 AAAAAC
* * ** *
132815 AAATCATTAAATCCAATGTGGCTGAGATTTGTTTAGATGAATATAGATAATTCAAGGAGTCTTGG
1 AAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATTTTTCAAGGAATCTTGG
* * * * *
132880 CGCCAAAAATTATTCAAAACCGAGCCGGGGC-CAAGGATCGCATTTTTAGGC-AAAAACCGTGAT
66 CGCCAAAAATCATGCAAAACCGAGCCGTGACTCAA-GATCG-ATTTTTA-GCAAAAAAACGTGAT
* * * * * * * * *
132943 GGTTAGCACACGATTTCAGCTAAAATTTTGCAAAAATTAATCTGAAATATTTTTTCTCAATTTTT
128 GATTAGTACACGATTTCAGCTAAAATATTACAAAAATTAACCCGAAGTATTTTTCCTCAAATTTT
* * * * * *
133008 AGCCACAATTATCATAGAAATATAAAATTCAACGTAAAAAAGATTGAAGGGTC-TTTTTTTTTCT
193 AGCAACAATAACCATAGAAATATATAATTCAACATAAAAATGATTGAAGGGTCATTTTTTTTTCT
* * * *
133072 TTT-TTAAAAAAGTTAATTTCTAATAAAATTGAAACAAGATTTTGATGCTTGTAAAAACAAATCC
258 TTTATTAAAAAAATTAATTTCTAATAAAATAGAAACAAGATTATGATGCTCGTAAAAACAAATCC
* *
133136 TTAAATCCAATGTGGCTGAGATTTGTTTAGATGAATATAGATTTTTTAAGGAGTCTTGGCGCCAA
323 TTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATTTTTCAAGGAGTCTTGGCGCCAA
* * *
133201 AAATCATGCAAAACTGAGTCGGGACCCAGGAATGCGTTTTTAGCCAAAAACCGTGATGGTTAGTA
388 AAATCATGCAAAACTGAGTCAGGACCCAGGAATGCATTTTTAGCCAAAAACCGTGTTGGTTAGTA
* * * *
133266 CACGATTTCAGCTTAAATTTTACAAAAATTGGCCAGAAAGATTTTTCCTCAAATTTTAGCTACAA
453 CACGATTTCAGCTAAAATTTTACAAAAATTGACCCGAAAGATTTTTCCTCAAATTTTAGCCACAA
* * * * *
133331 TAATCATAGAAATATATAATTCAACATAAAAAAGATTGAAGGGTTTTTCACGCTTCTAATATTGT
518 TAATCATAGAAATATATAATTCAACATCAAAAATATTGAAGGGCTTTTCAAGCTTCTAATATCGT
* * * *
133396 TTTTACAATTTTTTT-T-AATTAATTTCTAATAAAGTCGAAACAAGATTCTGATGCTCG------
583 TTTT-CCATTTTTTTCTGAATTAATTTCTAATAAAATCGAAATAAGATTCCGATGCTCGTAAAAA
133453 -
647 C
* *
133453 -------T--ATCCAATGTGGCTGAGATTTGGTTATATGAATATAGATTTTTCAAGGAGTCTTGG
1 AAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATTTTTCAAGGAATCTTGG
* * * * * * * * *
133509 CGCAAAAAATCATGCAAAACTGAGTCGGGACCCAGGAATGCG-TTTTTAGCCAAAAACCGTGACG
66 CGCCAAAAATCATGCAAAACCGAGCCGTGACTCAAG-AT-CGATTTTTAGCAAAAAAACGTGATG
* * * *
133573 --TA-T--ATGATTTCAGCTAAAATTTTACAAAAATTGACCCGAAAG-ATTTTTCCATAAAATTT
129 ATTAGTACACGATTTCAGCTAAAATATTACAAAAATTAACCCG-AAGTATTTTTCC-TCAAATTT
* * *
133632 TAGCCACAGTAATCATAGAAATATATAATTCAACATCAAAAA-GATTGAAGGG-C-TTTTCACGC
192 TAGCAACAATAACCATAGAAATATATAATTCAACAT-AAAAATGATTGAAGGGTCATTTT-----
***** * * *
133694 TTCTAATATCGTTTTTACATTTCTTTAATTAATTTCTAATAAAGTCGAAACAAGATTTTGATGCT
251 TT-T--T-TC--TTTT--ATTAAAAAAATTAATTTCTAATAAAATAGAAACAAGATTATGATGCT
* *
133759 TGTAAAAACAAATCCTTAAATCCATTGTGGCTGAGATTTGGTTAGATGAATATAGATTTTTCAAG
308 CGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATTTTTCAAG
* *
133824 GAGTCTTGGCGCCAAAAATCATGCAAAACTGAGTCGGGACCCAGGAATGCGTTTTTAGCCAAAAA
373 GAGTCTTGGCGCCAAAAATCATGCAAAACTGAGTCAGGACCCAGGAATGCATTTTTAGCCAAAAA
* * * *
133889 TCGTGATGGTTAGTACACGATTTCAGCTAAAA-TTTACAAAAATTGACCCGAGAGATATTTCCTC
438 CCGTGTTGGTTAGTACACGATTTCAGCTAAAATTTTACAAAAATTGACCCGAAAGATTTTTCCTC
* * *
133953 AAATTTTAGCCACAATAATCATAGAAATATATAATGCAACATCAAAAAGATTGAAGGGCTTGTCA
503 AAATTTTAGCCACAATAATCATAGAAATATATAATTCAACATCAAAAATATTGAAGGGCTTTTCA
* * * * *
134018 CGCTTCTAATA-CCTTTTCTCCATTTCTTTCTGAATGAATTTCTAATAAAATCGAAACAAGATTC
568 AGCTTCTAATATCGTTTT-TCCATTTTTTTCTGAATTAATTTCTAATAAAATCGAAATAAGATTC
*
134082 TGATGCTCGTAAAAAC
632 CGATGCTCGTAAAAAC
* * * *
134098 AAATCCTTAAATCCAATTTCGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGA
1 AAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATTTTTCAAGGAATCTTG-
* ** * * * * *
134163 G-TCCAAAAATCATGCAAAATTGAGCCG-GATTCTAGGAAC-ACGTTTTTAGCCAAAAACCGTGA
65 GCGCCAAAAATCATGCAAAACCGAGCCGTGACTC-AAGATCGA--TTTTTAGCAAAAAAACGTGA
* * * * * * * *
134225 TAATTAGTATC-CGGTTTCAGCTAAAATTTTGCAAAAATTTATCCGAAATATTTTTCCTCAATTT
127 TGATTAGTA-CACGATTTCAGCTAAAATATTACAAAAATTAACCCGAAGTATTTTTCCTCAAATT
* * * *
134289 TTAGCCACAATTATCATAGAAATATATAATTCAACATCAAAAA-GATT-ATAGGGTC-----GTT
191 TTAGCAACAATAACCATAGAAATATATAATTCAACAT-AAAAATGATTGA-AGGGTCATTTTTTT
* * * * *
134347 TT-TTTT-TT----AAATGAATTTCTAATAAAATCGAAAAAAGATTATGATGCTCGAAAAAATAA
254 TTCTTTTATTAAAAAAATTAATTTCTAATAAAATAGAAACAAGATTATGATGCTCGTAAAAACAA
* ** *
134406 ATCCTTAAATCCAATGTGGCTGAGATTTGGTTGGATGGCTACAGATTGTTT-AAGGAGTCTTGGC
319 ATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATT-TTTCAAGGAGTCTTGGC
* * * * * * * *
134470 GCCAAAAATCATGCAAAACTGAG-CCGGAGCCCATGAACGCGTTTTTAGACAAATATCGTGATGG
383 GCCAAAAATCATGCAAAACTGAGTCAGGA-CCCAGGAATGCATTTTTAGCCAAAAACCGTGTTGG
* * * * *
134534 TTAGTACACGATTTCAGCTAAAATTTTCCAAAAAATGATCGGAAAGATTTTTCAC-CAATTTTTA
447 TTAGTACACGATTTCAGCTAAAATTTTACAAAAATTGACCCGAAAGATTTTTC-CTCAAATTTTA
* * * * * * * *
134598 GTCACAATAATCATAGGAATATATAATTCAA-AGTAAAAAAGATTGAATGACTTTTCATGCCTCT
511 GCCACAATAATCATAGAAATATATAATTCAACA-TCAAAAATATTGAAGGGCTTTTCAAGCTTCT
* * * * *
134662 AATATTGTTTTTCCATTTTTTTATCTAAATTAATTTCAAATAAAATTGTAATAAGATTCCGATGC
575 AATATCGTTTTTCCA-TTTTTT-TCTGAATTAATTTCTAATAAAATCGAAATAAGATTCCGATGC
*
134727 TCGTAAAACC
638 TCGTAAAAAC
* ** * *
134737 ATATCCTTAAATCCAATGTGGCTGAGATTT-GTCTAGATGAATATAGATAATTCAAGGAGTGTTG
1 AAATCCTTAAATCCAATGTGGCTGAGATTTGGT-TAGATGAATATAGATTTTTCAAGGAATCTTG
** *
134801 GTTCCAAAAATCATTCAAAACCGAGCCGTGACTCAAGATCGTATTTTTAGCAAAAAAACGTGATG
65 GCGCCAAAAATCATGCAAAACCGAGCCGTGACTCAAGATCG-ATTTTTAGCAAAAAAACGTGATG
* * ** *
134866 ATTAGTACACGATTTCAGCTAAAATATTGCAAAAATTAATCCGAAGTATTTTTCCTTGATTTTTA
129 ATTAGTACACGATTTCAGCTAAAATATTACAAAAATTAACCCGAAGTATTTTTCCTCAAATTTTA
*
134931 GCAACAATCACCATAGAAATATATAATTCAACATAAAAATGATTGAAGGGTCATTTTTTTTTCTT
194 GCAACAATAACCATAGAAATATATAATTCAACATAAAAATGATTGAAGGGTCATTTTTTTTTCTT
* * *
134996 TTATTAAAAAAATTAATTTCTAATAAAATTGAAACAAGATTTTGATGCTCGTAAAAACAAATCTT
259 TTATTAAAAAAATTAATTTCTAATAAAATAGAAACAAGATTATGATGCTCGTAAAAACAAATCCT
* * *
135061 TAAATCCAATGTGGTTGAGATTTGGTTAGATGAATATAGATTTTTCAAGAAGTCTTGGTGCCAAA
324 TAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATTTTTCAAGGAGTCTTGGCGCCAAA
* * * *
135126 AATCATGTAAAACTGAATCAGGACCCAGGACTGCATTTTTAGCGAAAAACCGTGTTGGTTAGTAC
389 AATCATGCAAAACTGAGTCAGGACCCAGGAATGCATTTTTAGCCAAAAACCGTGTTGGTTAGTAC
* * *
135191 ACGATTTCAGCTAAAATTTTATAAAAATTGACCCGAAAGATTTGTCCTCAAATTTTAGCCATAAT
454 ACGATTTCAGCTAAAATTTTACAAAAATTGACCCGAAAGATTTTTCCTCAAATTTTAGCCACAAT
*
135256 AATCATAGAAATATATAATTCAACATCAAAAATATTGAAGGGCTTTTCACGCTTCTAATATCGTT
519 AATCATAGAAATATATAATTCAACATCAAAAATATTGAAGGGCTTTTCAAGCTTCTAATATCGTT
* * * ** *
135321 TTTACA-TTTTTT-TGAATTAATTTCTAATAAAGTCGAAACAAGATTTTGATGCTTGTAAAAAC
584 TTTCCATTTTTTTCTGAATTAATTTCTAATAAAATCGAAATAAGATTCCGATGCTCGTAAAAAC
* *
135383 AAATCCTTAAATCCACTGTGGCTGAGATTTGGTTAGATGAATATGGATTTTTCAAGGAATCTTGG
1 AAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATTTTTCAAGGAATCTTGG
* * * *
135448 CGCCAAAAATCATGCAAAACTGAGTCG-GAC-CTAGGAATGCG-TTTTTAGGC-AAAAACCGTGA
66 CGCCAAAAATCATGCAAAACCGAGCCGTGACTC-AAG-AT-CGATTTTTA-GCAAAAAAACGTGA
* * *
135509 TGGTTAGTACACGATTTCAGCTAAAATTTTACAAAAATTGACCCGAAAG-ATTTTTCCTCAAATT
127 TGATTAGTACACGATTTCAGCTAAAATATTACAAAAATTAACCCG-AAGTATTTTTCCTCAAATT
* *
135573 TTAGCCACAATAATCATAGAAATATATAATTCAACATCAAAAA-GATTGAAGGGCTTTTCACGCT
191 TTAGCAACAATAACCATAGAAATATATAATTCAACAT-AAAAATGATTGAAGGG----TCA---T
***** * **
135637 TCTAATATCGTTTTCAATTTT-TTTTCTGAATTAGTTTCTAATAAAATAGAAACAAGATTCCGAT
248 T-T--T-T--TTTTC--TTTTATTAAAAAAATTAATTTCTAATAAAATAGAAACAAGATTATGAT
* * *
135701 GCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGATATTTGATTAGATGAATATAAATTTTTC
305 GCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATTTTTC
* * * * *
135766 AAGGAGTCTTGGCACCAAAAATCTTGCAAAACAGAGTCGGGACCCAGGAATGCCTTTTTAGCCAA
370 AAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGTCAGGACCCAGGAATGCATTTTTAGCCAA
*
135831 AAACCGTGTTGGTTAGTACACGATTTCAGCTAAAATTTTACAAAAATTGACCCGAAAGATTTTTA
435 AAACCGTGTTGGTTAGTACACGATTTCAGCTAAAATTTTACAAAAATTGACCCGAAAGATTTTTC
* * * *
135896 CTCAAATATTAGCCACAATAATCATAGAAATTTATAATGCAACATCAAAAATATTGAAGGGCTTC
500 CTCAAATTTTAGCCACAATAATCATAGAAATATATAATTCAACATCAAAAATATTGAAGGGCTTT
* * *
135961 TCAAGCTTCTAATATCG-TTTTCCATTTTTTTTCTGAATTAGTTTCTAATAAAAACGATATAAGA
565 TCAAGCTTCTAATATCGTTTTTCCA-TTTTTTTCTGAATTAATTTCTAATAAAATCGAAATAAGA
*
136025 TTCCGATGCTCGTAAAAAT
629 TTCCGATGCTCGTAAAAAC
*
136044 AAATCCTTAAATCCAATGTGGCTGAGATGTGGTTAGATGAATATAGATTTTT
1 AAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATTTTT
136096 G
Statistics
Matches: 2820, Mismatches: 337, Indels: 232
0.83 0.10 0.07
Matches are distributed among these distances:
624 42 0.01
625 50 0.02
626 5 0.00
627 2 0.00
628 2 0.00
629 97 0.03
630 5 0.00
631 3 0.00
632 1 0.00
633 2 0.00
635 8 0.00
636 188 0.07
637 196 0.07
638 253 0.09
639 244 0.09
640 7 0.00
641 1 0.00
643 15 0.01
644 20 0.01
645 364 0.13
646 336 0.12
647 86 0.03
648 12 0.00
649 8 0.00
650 266 0.09
651 5 0.00
652 4 0.00
653 5 0.00
654 95 0.03
655 2 0.00
656 3 0.00
657 2 0.00
658 67 0.02
659 324 0.11
660 10 0.00
661 90 0.03
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (647 bp):
AAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATTTTTCAAGGAATCTTGG
CGCCAAAAATCATGCAAAACCGAGCCGTGACTCAAGATCGATTTTTAGCAAAAAAACGTGATGAT
TAGTACACGATTTCAGCTAAAATATTACAAAAATTAACCCGAAGTATTTTTCCTCAAATTTTAGC
AACAATAACCATAGAAATATATAATTCAACATAAAAATGATTGAAGGGTCATTTTTTTTTCTTTT
ATTAAAAAAATTAATTTCTAATAAAATAGAAACAAGATTATGATGCTCGTAAAAACAAATCCTTA
AATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATTTTTCAAGGAGTCTTGGCGCCAAAAA
TCATGCAAAACTGAGTCAGGACCCAGGAATGCATTTTTAGCCAAAAACCGTGTTGGTTAGTACAC
GATTTCAGCTAAAATTTTACAAAAATTGACCCGAAAGATTTTTCCTCAAATTTTAGCCACAATAA
TCATAGAAATATATAATTCAACATCAAAAATATTGAAGGGCTTTTCAAGCTTCTAATATCGTTTT
TCCATTTTTTTCTGAATTAATTTCTAATAAAATCGAAATAAGATTCCGATGCTCGTAAAAAC
Done.