Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015020.1 Kokia drynarioides strain JFW-HI SEQ_130064, 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: 1341705
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 344 characters in sequence are not A, C, G, or T
File 3 of 5
Found at i:696812 original size:16 final size:17
Alignment explanation
Indices: 696775--696817 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
696765 TTACATCTTT
696775 TATTTATGTTATTAATGG
1 TATTTAT-TTATTAATGG
* *
696793 TA-TTATTTATTATTGT
1 TATTTATTTATTAATGG
696809 TATTTATTT
1 TATTTATTT
696818 TATTCTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 10 0.45
17 10 0.45
18 2 0.09
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (17 bp):
TATTTATTTATTAATGG
Found at i:697754 original size:15 final size:16
Alignment explanation
Indices: 697701--697758 Score: 55
Period size: 15 Copynumber: 3.6 Consensus size: 16
697691 AAAAATTTAT
*
697701 AAAATTAATAATGTTAA
1 AAAATTAATAAT-TAAA
* *
697718 CAACTTAATAATTAAA
1 AAAATTAATAATTAAA
**
697734 TTAATTAA-AATTAAA
1 AAAATTAATAATTAAA
697749 AAAATTAATA
1 AAAATTAATA
697759 GTATTTTCTT
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
15 13 0.41
16 9 0.28
17 10 0.31
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.34
Consensus pattern (16 bp):
AAAATTAATAATTAAA
Found at i:699259 original size:14 final size:14
Alignment explanation
Indices: 699242--699270 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
699232 ATAACAAAAC
699242 AATAACAACATAAT
1 AATAACAACATAAT
699256 AATAACAACATAAT
1 AATAACAACATAAT
699270 A
1 A
699271 GTGAAATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.14, G:0.00, T:0.21
Consensus pattern (14 bp):
AATAACAACATAAT
Found at i:699305 original size:21 final size:19
Alignment explanation
Indices: 699256--699332 Score: 64
Period size: 21 Copynumber: 3.8 Consensus size: 19
699246 ACAACATAAT
* *
699256 AATAACAACATAATAGTGA
1 AATAACAACAAAACAGTGA
* *
699275 AATGATAACAAAACAGTGAAA
1 AATAACAACAAAACAGTG--A
*
699296 AATAACAACAAAACAGTAGG
1 AATAACAACAAAACAGT-GA
699316 AATACTACAACAAAACA
1 AATA--ACAACAAAACA
699333 ACAAACCTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
19 14 0.30
20 4 0.09
21 16 0.35
22 12 0.26
ACGTcount: A:0.61, C:0.14, G:0.10, T:0.14
Consensus pattern (19 bp):
AATAACAACAAAACAGTGA
Found at i:699707 original size:3 final size:3
Alignment explanation
Indices: 699699--699735 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
699689 TGGTGTCTTA
699699 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
699736 TTAAAAATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:702071 original size:10 final size:9
Alignment explanation
Indices: 702056--702103 Score: 51
Period size: 10 Copynumber: 5.1 Consensus size: 9
702046 GTCCAAGCCT
702056 AACAAAAATA
1 AACAAAAA-A
702066 AACAAAAAA
1 AACAAAAAA
*
702075 AATACAAAAA
1 AACA-AAAAA
* *
702085 AATAAAATA
1 AACAAAAAA
702094 AACAAAAAA
1 AACAAAAAA
702103 A
1 A
702104 TCCTTTAACA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
9 16 0.48
10 17 0.52
ACGTcount: A:0.83, C:0.08, G:0.00, T:0.08
Consensus pattern (9 bp):
AACAAAAAA
Found at i:704106 original size:270 final size:272
Alignment explanation
Indices: 703756--704303 Score: 832
Period size: 270 Copynumber: 2.0 Consensus size: 272
703746 GTTGTGTCCT
* *
703756 AACTTACTGGATATAATTTTTCTCGATTGATTCAAAATAAATGAGCTTCGTCCACAAAATCTGAT
1 AACTTACTGGACATAATTTTTCTCGATTAATTCAAAATAAATGAGCTTCGTCCACAAAATCTGAT
* *
703821 TTTTAAATGACATTAAAACATCTCATTCGTGTATTTATGGATCGTATTTTTAAATTTTACTCGAG
66 TTTTAAATGACATTAAAACATCTCATTCGTGTATTTATGGATCATATTTTTAAATATTACTCGAG
* * * *
703886 TTTTCAATCTTCAACAATTAAGGCCTTAAATAATCTACTAGATACCAATTTTAGGCATGTAAGGG
131 TTTTCAATCTTCAACAATTAAGACATTAAATAATCGACTAGATACCAATTTTAGGCATGTAAGGA
** * * *
703951 TGCTAATCATTTTTCACACGTAACCGACTTCCGAACCTGTTTTCTGGATTTTAAAGACCAAAACT
196 TGCTAATCATTCCTCACACGTAACCGACTCCCGAACCTGTTTTCTAGATTTCAAAGACCAAAACT
704016 TATGTTTAAATA
261 TATGTTTAAATA
* *
704028 CACTTACTGGACATAA-TTTTCTCGA-TAATTCAAAATAAATGAGCTTCGTCCAC-AAATTTCGA
1 AACTTACTGGACATAATTTTTCTCGATTAATTCAAAATAAATGAGCTTCGTCCACAAAATCT-GA
*
704090 TTTTTAAATTACATTAAAACATCTCATTCGTGTATTTATGGATCATATTTTTAAATATTACTCGA
65 TTTTTAAATGACATTAAAACATCTCATTCGTGTATTTATGGATCATATTTTTAAATATTACTCGA
* * * *
704155 GTTTTCAATCTTCAACAATTAAGACATTAAATAATCGATTAGGTACCAATTTTGGGCATGTGAGG
130 GTTTTCAATCTTCAACAATTAAGACATTAAATAATCGACTAGATACCAATTTTAGGCATGTAAGG
* * * **
704220 ATGCTAATCCTTCCTCACACGTAACCGACTCCCGAACTTGTTTTCTAGATTTCGAAGACTGAAAC
195 ATGCTAATCATTCCTCACACGTAACCGACTCCCGAACCTGTTTTCTAGATTTCAAAGACCAAAAC
*
704285 TTGTGTTTAAATA
260 TTATGTTTAAATA
704298 AACTTA
1 AACTTA
704304 AATATTTTAC
Statistics
Matches: 248, Mismatches: 27, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
269 5 0.02
270 220 0.89
271 9 0.04
272 14 0.06
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.37
Consensus pattern (272 bp):
AACTTACTGGACATAATTTTTCTCGATTAATTCAAAATAAATGAGCTTCGTCCACAAAATCTGAT
TTTTAAATGACATTAAAACATCTCATTCGTGTATTTATGGATCATATTTTTAAATATTACTCGAG
TTTTCAATCTTCAACAATTAAGACATTAAATAATCGACTAGATACCAATTTTAGGCATGTAAGGA
TGCTAATCATTCCTCACACGTAACCGACTCCCGAACCTGTTTTCTAGATTTCAAAGACCAAAACT
TATGTTTAAATA
Found at i:706131 original size:16 final size:16
Alignment explanation
Indices: 706106--706138 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
706096 TATGCATACA
706106 TGCATTCATTA-GCAT
1 TGCATTCATTATGCAT
706121 TGCATTTCATTATGCAT
1 TGCA-TTCATTATGCAT
706138 T
1 T
706139 AAAAAAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 7 0.44
17 5 0.31
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.45
Consensus pattern (16 bp):
TGCATTCATTATGCAT
Found at i:707042 original size:5 final size:5
Alignment explanation
Indices: 707032--707095 Score: 53
Period size: 5 Copynumber: 12.8 Consensus size: 5
707022 TAAACCTTAA
* *
707032 AAAAG AAAAG AAAA- AAGAA- AAATAA AAAAG AAGAG AAAAG AAAAG AAAAAG
1 AAAAG AAAAG AAAAG AA-AAG AAA-AG AAAAG AAAAG AAAAG AAAAG -AAAAG
*
707083 GAAAG AAAA- AAAA
1 AAAAG AAAAG AAAA
707096 TCAAGATGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
4 7 0.14
5 35 0.70
6 8 0.16
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (5 bp):
AAAAG
Found at i:707047 original size:12 final size:12
Alignment explanation
Indices: 707030--707093 Score: 71
Period size: 12 Copynumber: 5.5 Consensus size: 12
707020 TTTAAACCTT
707030 AAAAAAGAAAAG
1 AAAAAAGAAAAG
707042 AAAAAAGAAAA-
1 AAAAAAGAAAAG
*
707053 ATAAAAA-AGAAG
1 A-AAAAAGAAAAG
*
707065 AGAAAAGAAAAG
1 AAAAAAGAAAAG
*
707077 -AAAAAGGAAAG
1 AAAAAAGAAAAG
707088 AAAAAA
1 AAAAAA
707094 AATCAAGATG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
11 17 0.40
12 26 0.60
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (12 bp):
AAAAAAGAAAAG
Found at i:708007 original size:8 final size:9
Alignment explanation
Indices: 707987--708028 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
707977 TATTTCACCC
707987 AAAAA-AAG
1 AAAAATAAG
707995 AAAAATAAG
1 AAAAATAAG
708004 AAAAATAAG
1 AAAAATAAG
*
708013 AGAAGAAAAAG
1 A-AA-AATAAG
708024 AAAAA
1 AAAAA
708029 GAATAAGGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
8 5 0.17
9 15 0.50
10 4 0.13
11 6 0.20
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (9 bp):
AAAAATAAG
Found at i:708020 original size:23 final size:23
Alignment explanation
Indices: 707992--708035 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
707982 CACCCAAAAA
*
707992 AAGAAAAATAAGAAA-AATAAGAG
1 AAGAAAAAGAA-AAAGAATAAGAG
708015 AAGAAAAAGAAAAAGAATAAG
1 AAGAAAAAGAAAAAGAATAAG
708036 GAGAGGTCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (23 bp):
AAGAAAAAGAAAAAGAATAAGAG
Found at i:709126 original size:99 final size:99
Alignment explanation
Indices: 709008--709348 Score: 488
Period size: 99 Copynumber: 3.4 Consensus size: 99
708998 TAAAGCCAGA
* *
709008 AACAGATCTCAATGTCCCTGAAGTTACAATGGAATGGAGTGAAGTTTTAACAACAAATCCTATCT
1 AACAGATCTCAATGTCCCTGAAGTTACAATGGAATAGAGTGAAGCTTTAACAACAAATCCTATCT
709073 TCTTGAAGTTACAGTGAAATGGATTAAAACAAGT
66 TCTTGAAGTTACAGTGAAATGGATTAAAACAAGT
*
709107 AACAGATCTCAATGTCCCTGAAGTTACAATGGAATGGAGTGAAGCTTTAACAACAAATCCTATCT
1 AACAGATCTCAATGTCCCTGAAGTTACAATGGAATAGAGTGAAGCTTTAACAACAAATCCTATCT
709172 TCTTGAAGTTACAGTGAAATGGATTAAAACAAGT
66 TCTTGAAGTTACAGTGAAATGGATTAAAACAAGT
* *
709206 AACAGATCTCAATGTCCCT-AAGGTTGCAGTGGAATAGAGTGAAGCTTTAACAACAAATCCTATC
1 AACAGATCTCAATGTCCCTGAA-GTTACAATGGAATAGAGTGAAGCTTTAACAACAAATCCTATC
* * * ** * *
709270 TTCCTAAAGTTACATTGAAGCGAAATT-AAATAAGT
65 TTCTTGAAGTTACAGTGAAATG-GATTAAAACAAGT
* * * * * *
709305 AACAAATCTTAATGTCCTTGAGGTTACAGTGAAATAGAGTGAAG
1 AACAGATCTCAATGTCCCTGAAGTTACAATGGAATAGAGTGAAG
709349 TTACAACACC
Statistics
Matches: 222, Mismatches: 17, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
98 2 0.01
99 216 0.97
100 4 0.02
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (99 bp):
AACAGATCTCAATGTCCCTGAAGTTACAATGGAATAGAGTGAAGCTTTAACAACAAATCCTATCT
TCTTGAAGTTACAGTGAAATGGATTAAAACAAGT
Found at i:709183 original size:50 final size:50
Alignment explanation
Indices: 709026--709194 Score: 173
Period size: 50 Copynumber: 3.4 Consensus size: 50
709016 TCAATGTCCC
* *
709026 TGAAGTTACAATGGAATGGAGTGAAGTTTTAACAACAAATCCTATCTTCT
1 TGAAGTTACAATGAAATGGAGTGAAGCTTTAACAACAAATCCTATCTTCT
* * * * * * * * * *
709076 TGAAGTTACAGTGAAATGGATTAAAAC---AAGTAACAGATCTCAATGTCCC
1 TGAAGTTACAATGAAATGGAGTGAAGCTTTAA-CAACAAATC-CTATCTTCT
*
709125 TGAAGTTACAATGGAATGGAGTGAAGCTTTAACAACAAATCCTATCTTCT
1 TGAAGTTACAATGAAATGGAGTGAAGCTTTAACAACAAATCCTATCTTCT
*
709175 TGAAGTTACAGTGAAATGGA
1 TGAAGTTACAATGAAATGGA
709195 TTAAAACAAG
Statistics
Matches: 89, Mismatches: 25, Indels: 10
0.72 0.20 0.08
Matches are distributed among these distances:
47 2 0.02
48 7 0.08
49 27 0.30
50 44 0.49
51 7 0.08
52 2 0.02
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (50 bp):
TGAAGTTACAATGAAATGGAGTGAAGCTTTAACAACAAATCCTATCTTCT
Found at i:709276 original size:50 final size:49
Alignment explanation
Indices: 709028--709283 Score: 164
Period size: 50 Copynumber: 5.2 Consensus size: 49
709018 AATGTCCCTG
* * *
709028 AAGTTACAATGGAATGGAGTGAAGTTTTAACAACAAATCCTATCTTCTT
1 AAGTTACAGTGGAATGGAGTGAAGCTTTAACAACAAATCCTATCTTCCT
* * * * * * * * *
709077 GAAGTTACAGTGAAATGGATTAAAAC---AAGTAACAGATCTCAATGTCCCT
1 -AAGTTACAGTGGAATGGAGTGAAGCTTTAA-CAACAAATC-CTATCTTCCT
* *
709126 GAAGTTACAATGGAATGGAGTGAAGCTTTAACAACAAATCCTATCTTCTT
1 -AAGTTACAGTGGAATGGAGTGAAGCTTTAACAACAAATCCTATCTTCCT
* * * * * * * * *
709176 GAAGTTACAGTGAAATGGATTAAAAC---AAGTAACAGATCTCAATGTCCCT
1 -AAGTTACAGTGGAATGGAGTGAAGCTTTAA-CAACAAATC-CTATCTTCCT
* *
709225 AAGGTTGCAGTGGAATAGAGTGAAGCTTTAACAACAAATCCTATCTTCCT
1 AA-GTTACAGTGGAATGGAGTGAAGCTTTAACAACAAATCCTATCTTCCT
709275 AAAGTTACA
1 -AAGTTACA
709284 TTGAAGCGAA
Statistics
Matches: 148, Mismatches: 46, Indels: 24
0.68 0.21 0.11
Matches are distributed among these distances:
47 4 0.03
48 16 0.11
49 50 0.34
50 58 0.39
51 16 0.11
52 4 0.03
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (49 bp):
AAGTTACAGTGGAATGGAGTGAAGCTTTAACAACAAATCCTATCTTCCT
Found at i:709362 original size:99 final size:98
Alignment explanation
Indices: 708895--709350 Score: 481
Period size: 99 Copynumber: 4.6 Consensus size: 98
708885 TGTAGTGGGT
* * *
708895 CGGATTAAAAAAAGTAACAGAAT-TCAATGTCCCTGAGGTTACAGTGAAAT-GTAGTGAAGTTAC
1 CGGATTAAAACAAGTAACAG-ATCTCAATGTCCCTGAGGTTACAGTGGAATAG-AGTGAAGTT-T
* * ** ***
708958 AACACCAAATCATATAC--CCTAAAGTTGTAGTGGGT
63 AACAACAAATCCTAT-CTTCCTAAAGTTACAGTGAAA
* * * * * * *
708993 CAGATTAAAGCCAGAAACAGATCTCAATGTCCCTGAAGTTACAATGGAATGGAGTGAAGTTTTAA
1 CGGATTAAAACAAGTAACAGATCTCAATGTCCCTGAGGTTACAGTGGAATAGAGTGAAG-TTTAA
* *
709058 CAACAAATCCTATCTTCTTGAAGTTACAGTGAAA
65 CAACAAATCCTATCTTCCTAAAGTTACAGTGAAA
* * * *
709092 TGGATTAAAACAAGTAACAGATCTCAATGTCCCTGAAGTTACAATGGAATGGAGTGAAGCTTTAA
1 CGGATTAAAACAAGTAACAGATCTCAATGTCCCTGAGGTTACAGTGGAATAGAGTGAAG-TTTAA
* *
709157 CAACAAATCCTATCTTCTTGAAGTTACAGTGAAA
65 CAACAAATCCTATCTTCCTAAAGTTACAGTGAAA
* * *
709191 TGGATTAAAACAAGTAACAGATCTCAATGTCCCTAAGGTTGCAGTGGAATAGAGTGAAGCTTTAA
1 CGGATTAAAACAAGTAACAGATCTCAATGTCCCTGAGGTTACAGTGGAATAGAGTGAAG-TTTAA
* *
709256 CAACAAATCCTATCTTCCTAAAGTTACATTGAAG
65 CAACAAATCCTATCTTCCTAAAGTTACAGTGAAA
* * * * * *
709290 CGAAATT-AAATAAGTAACAAATCTTAATGTCCTTGAGGTTACAGTGAAATAGAGTGAAGTT
1 CG-GATTAAAACAAGTAACAGATCTCAATGTCCCTGAGGTTACAGTGGAATAGAGTGAAGTT
709351 ACAACACCAA
Statistics
Matches: 310, Mismatches: 42, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
97 3 0.01
98 61 0.20
99 243 0.78
100 3 0.01
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.27
Consensus pattern (98 bp):
CGGATTAAAACAAGTAACAGATCTCAATGTCCCTGAGGTTACAGTGGAATAGAGTGAAGTTTAAC
AACAAATCCTATCTTCCTAAAGTTACAGTGAAA
Found at i:709377 original size:198 final size:197
Alignment explanation
Indices: 708898--709379 Score: 539
Period size: 198 Copynumber: 2.4 Consensus size: 197
708888 AGTGGGTCGG
*
708898 ATTAAAAAAAGTAACAGAAT-TCAATGTCCCTGAGGTTACAGTGAAATGTAGTGAAGTTACAACA
1 ATTAAAACAAGTAACA-AATCTCAATGTCCCTGAGGTTACAGTGAAATG-AGTGAAGTTACAACA
* ** ** * *
708962 CCAAA-TCATATACCC-TAAAGTTGTAGTGGGTCAGATTAAAGCCAGAAACAGATCTCAATGTCC
64 CCAAATTC-TATACCCTTGAAGTTACAGTGAATCAGATTAAAACAAGAAACAGATCTCAATGTCC
* * * *
709025 CTGAAGTTACAATGGAATGGAGTGAAGTTTTAACAACAAATCCTATCTTCTTGAAGTTACAGTGA
128 CTGAAGTTACAATGGAATAGAGTGAAGCTTTAACAACAAATCCTATCTTCCTAAAGTTACAGTGA
* *
709090 AATGG
193 AACGA
* * * * *
709095 ATTAAAACAAGTAACAGATCTCAATGTCCCTGAAGTTACAATGGAATGGAGTGAAGCTT-TAACA
1 ATTAAAACAAGTAACAAATCTCAATGTCCCTGAGGTTACAGTGAAAT-GAGTGAAG-TTACAACA
* * * * *
709159 ACAAATCCTAT-CTTCTTGAAGTTACAGTGAAAT-GGATTAAAACAAGTAACAGATCTCAATGTC
64 CCAAATTCTATAC-CCTTGAAGTTACAGTG-AATCAGATTAAAACAAGAAACAGATCTCAATGTC
* * *
709222 CCT-AAGGTTGCAGTGGAATAGAGTGAAGCTTTAACAACAAATCCTATCTTCCTAAAGTTACATT
127 CCTGAA-GTTACAATGGAATAGAGTGAAGCTTTAACAACAAATCCTATCTTCCTAAAGTTACAGT
*
709286 GAAGCGAA
191 GAAACG-A
* * *
709294 ATT-AAATAAGTAACAAATCTTAATGTCCTTGAGGTTACAGTGAAATAGAGTGAAGTTACAACAC
1 ATTAAAACAAGTAACAAATCTCAATGTCCCTGAGGTTACAGTGAAAT-GAGTGAAGTTACAACAC
709358 CAAATTCTATACCCTTGAAGTT
65 CAAATTCTATACCCTTGAAGTT
709380 GTGATGGGTC
Statistics
Matches: 234, Mismatches: 40, Indels: 21
0.79 0.14 0.07
Matches are distributed among these distances:
196 3 0.01
197 62 0.26
198 164 0.70
199 5 0.02
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (197 bp):
ATTAAAACAAGTAACAAATCTCAATGTCCCTGAGGTTACAGTGAAATGAGTGAAGTTACAACACC
AAATTCTATACCCTTGAAGTTACAGTGAATCAGATTAAAACAAGAAACAGATCTCAATGTCCCTG
AAGTTACAATGGAATAGAGTGAAGCTTTAACAACAAATCCTATCTTCCTAAAGTTACAGTGAAAC
GA
Found at i:709505 original size:50 final size:50
Alignment explanation
Indices: 709421--709914 Score: 415
Period size: 50 Copynumber: 9.9 Consensus size: 50
709411 TAAAGGGGTG
* * * *
709421 GATTGAAGCCGCAAGGG-CAAGTTTTATACCCCTAAAGCTGTAGAGAAGCA
1 GATTGAAGCCGCAAGGGTGAA-TCTTATACACCTAAAGCTGTAGAGGAGCA
* *
709471 GATTGAAGCCGTAAGGGTGAAT-TTCATACACCTAAAGCTGTAGAGGGGCA
1 GATTGAAGCCGCAAGGGTGAATCTT-ATACACCTAAAGCTGTAGAGGAGCA
* * * * * * * *
709521 GATTGAAACTGCAAGGGCGAATCTTATACCCCTAAAGTTGTAAAGCAACA
1 GATTGAAGCCGCAAGGGTGAATCTTATACACCTAAAGCTGTAGAGGAGCA
* * * * * *
709571 GATTTAAGCCGCAAGAGTGAATCTCATACACTTAAAGCTGTAGAGGGGTA
1 GATTGAAGCCGCAAGGGTGAATCTTATACACCTAAAGCTGTAGAGGAGCA
* * * *
709621 GATTGAAGCTGCAAGGGTGAATCTTATAC-CTTTAAAGCTGTAGAGGGGAA
1 GATTGAAGCCGCAAGGGTGAATCTTATACAC-CTAAAGCTGTAGAGGAGCA
* ** * * *
709671 AATTGAAGCCGCAAAAGCGAATCTCATACACCTAAAGCTATAGAGGAGCA
1 GATTGAAGCCGCAAGGGTGAATCTTATACACCTAAAGCTGTAGAGGAGCA
* ** * * * *
709721 GATTGAAGCCACAAAAGCGAATCTTATACCCCTAAAGCTATAGAGGAGTA
1 GATTGAAGCCGCAAGGGTGAATCTTATACACCTAAAGCTGTAGAGGAGCA
* * * ** * * * *
709771 AACTAAAGTTGCAA-GGTGAATCTTATGCACATAAAGTTGTAGAGGGGCA
1 GATTGAAGCCGCAAGGGTGAATCTTATACACCTAAAGCTGTAGAGGAGCA
* * *
709820 GATTGAAGCCGCAAGGGTGAATCTTATACCCCTAAAGTTGTAGATGAGC-
1 GATTGAAGCCGCAAGGGTGAATCTTATACACCTAAAGCTGTAGAGGAGCA
* *** *
709869 GAATTGAAGCCGCAATGCCAAATCTTATAC-CCTTAAAGTTGTAGAG
1 G-ATTGAAGCCGCAAGGGTGAATCTTATACACC-TAAAGCTGTAGAG
709915 AAGCGGATCC
Statistics
Matches: 357, Mismatches: 79, Indels: 16
0.79 0.17 0.04
Matches are distributed among these distances:
49 41 0.11
50 311 0.87
51 5 0.01
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.22
Consensus pattern (50 bp):
GATTGAAGCCGCAAGGGTGAATCTTATACACCTAAAGCTGTAGAGGAGCA
Found at i:709591 original size:100 final size:100
Alignment explanation
Indices: 709421--709883 Score: 461
Period size: 100 Copynumber: 4.6 Consensus size: 100
709411 TAAAGGGGTG
* * *
709421 GATTGAAGCCGCAAGGGC-AAGTTTTATACCCCTAAAGCTGTAGA-GAAGCAGATTGAAGCCGTA
1 GATTGAAGCCGCAAGGGCGAA-TCTTATACCCCTAAAGCTGTAAAGGAA-CAGATTGAAGCCGCA
* *
709484 AGGGTGAATTTCATACACCTAAAGCTGTAGAGGGGCA
64 AGAGTGAATCTCATACACCTAAAGCTGTAGAGGGGCA
* * * * *
709521 GATTGAAACTGCAAGGGCGAATCTTATACCCCTAAAGTTGTAAAGCAACAGATTTAAGCCGCAAG
1 GATTGAAGCCGCAAGGGCGAATCTTATACCCCTAAAGCTGTAAAGGAACAGATTGAAGCCGCAAG
* *
709586 AGTGAATCTCATACACTTAAAGCTGTAGAGGGGTA
66 AGTGAATCTCATACACCTAAAGCTGTAGAGGGGCA
* * ** *
709621 GATTGAAGCTGCAAGGGTGAATCTTATACCTTTAAAGCTGTAGAGGGGAA-A-ATTGAAGCCGCA
1 GATTGAAGCCGCAAGGGCGAATCTTATACCCCTAAAGCTGTA-A-AGGAACAGATTGAAGCCGCA
* * * *
709684 AAAGCGAATCTCATACACCTAAAGCTATAGAGGAGCA
64 AGAGTGAATCTCATACACCTAAAGCTGTAGAGGGGCA
* ** * * ** * * * **
709721 GATTGAAGCCACAAAAGCGAATCTTATACCCCTAAAGCTATAGAGGAGTAAACTAAAGTTGCAAG
1 GATTGAAGCCGCAAGGGCGAATCTTATACCCCTAAAGCTGTAAAGGAACAGATTGAAGCCGCAAG
* * * *
709786 -GTGAATCTTATGCACATAAAGTTGTAGAGGGGCA
66 AGTGAATCTCATACACCTAAAGCTGTAGAGGGGCA
* * * * *
709820 GATTGAAGCCGCAAGGGTGAATCTTATACCCCTAAAGTTGTAGATGAGC-GAATTGAAGCCGCAA
1 GATTGAAGCCGCAAGGGCGAATCTTATACCCCTAAAGCTGTAAAGGAACAG-ATTGAAGCCGCAA
709884 TGCCAAATCT
Statistics
Matches: 294, Mismatches: 62, Indels: 15
0.79 0.17 0.04
Matches are distributed among these distances:
98 3 0.01
99 78 0.27
100 204 0.69
101 6 0.02
102 3 0.01
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (100 bp):
GATTGAAGCCGCAAGGGCGAATCTTATACCCCTAAAGCTGTAAAGGAACAGATTGAAGCCGCAAG
AGTGAATCTCATACACCTAAAGCTGTAGAGGGGCA
Found at i:709624 original size:150 final size:150
Alignment explanation
Indices: 709446--709861 Score: 469
Period size: 150 Copynumber: 2.8 Consensus size: 150
709436 GGCAAGTTTT
* * * * * *
709446 ATACCCCTAAAGCTGTAGAGAAGCAGATTGAAGCCGTAAGGGTGAAT-TTCATACACCTAAAGCT
1 ATACACCTAAAGCTGTAGAGGAGTAGATTGAAGCTGCAAGGGTGAATCTT-ATACACATAAAGCT
* *
709510 GTAGAGGGGCAGATTGAAACTGCAAGGGCGAATCTTATACCCCTAAAGTTGTAAAGCAACAGATT
65 GTAGAGGGGCAGATTGAAGCCGCAAGGGCGAATCTTATACCCCTAAAGTTGTAAAGCAACAGATT
* * * *
709575 TAAGCCGCAAGAGTGAATCTC
130 GAAGCCACAAAAGCGAATCTC
* * *
709596 ATACACTTAAAGCTGTAGAGGGGTAGATTGAAGCTGCAAGGGTGAATCTTATAC-CTTTAAAGCT
1 ATACACCTAAAGCTGTAGAGGAGTAGATTGAAGCTGCAAGGGTGAATCTTATACAC-ATAAAGCT
* * ** * * * * * * *
709660 GTAGAGGGGAAAATTGAAGCCGCAAAAGCGAATCTCATACACCTAAAGCTATAGAGGAGCAGATT
65 GTAGAGGGGCAGATTGAAGCCGCAAGGGCGAATCTTATACCCCTAAAGTTGTAAAGCAACAGATT
*
709725 GAAGCCACAAAAGCGAATCTT
130 GAAGCCACAAAAGCGAATCTC
* * * * * * * *
709746 ATACCCCTAAAGCTATAGAGGAGTAAACTAAAGTTGCAA-GGTGAATCTTATGCACATAAAGTTG
1 ATACACCTAAAGCTGTAGAGGAGTAGATTGAAGCTGCAAGGGTGAATCTTATACACATAAAGCTG
*
709810 TAGAGGGGCAGATTGAAGCCGCAAGGGTGAATCTTATACCCCTAAAGTTGTA
66 TAGAGGGGCAGATTGAAGCCGCAAGGGCGAATCTTATACCCCTAAAGTTGTA
709862 GATGAGCGAA
Statistics
Matches: 217, Mismatches: 46, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
149 64 0.29
150 151 0.70
151 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (150 bp):
ATACACCTAAAGCTGTAGAGGAGTAGATTGAAGCTGCAAGGGTGAATCTTATACACATAAAGCTG
TAGAGGGGCAGATTGAAGCCGCAAGGGCGAATCTTATACCCCTAAAGTTGTAAAGCAACAGATTG
AAGCCACAAAAGCGAATCTC
Found at i:710025 original size:15 final size:16
Alignment explanation
Indices: 709986--710018 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
709976 AAGCACCGAA
*
709986 GAAACTAGATCTAGTG
1 GAAACCAGATCTAGTG
710002 GAAACCAGATCTAGTG
1 GAAACCAGATCTAGTG
710018 G
1 G
710019 GACCAGAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.21
Consensus pattern (16 bp):
GAAACCAGATCTAGTG
Found at i:711500 original size:14 final size:14
Alignment explanation
Indices: 711483--711517 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
711473 TATTCTGTTT
711483 ATTTTAATTTAATC
1 ATTTTAATTTAATC
*
711497 ATTTTATTTTAATC
1 ATTTTAATTTAATC
*
711511 CTTTTAA
1 ATTTTAA
711518 ATTTGCCCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (14 bp):
ATTTTAATTTAATC
Found at i:713285 original size:6 final size:6
Alignment explanation
Indices: 713268--713314 Score: 76
Period size: 6 Copynumber: 7.8 Consensus size: 6
713258 ACGCCTCTCT
* *
713268 TCTTCA TATTCA TCTTCA TCTTCA TATTCA TCTTCA TCTTCA TCTTC
1 TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA TCTTC
713315 TTCCTTTTTG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.19, C:0.30, G:0.00, T:0.51
Consensus pattern (6 bp):
TCTTCA
Found at i:713291 original size:18 final size:18
Alignment explanation
Indices: 713268--713310 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
713258 ACGCCTCTCT
713268 TCTTCATATTCATCTTCA
1 TCTTCATATTCATCTTCA
713286 TCTTCATATTCATCTTCA
1 TCTTCATATTCATCTTCA
713304 TCTTCAT
1 TCTTCAT
713311 CTTCTTCCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.21, C:0.28, G:0.00, T:0.51
Consensus pattern (18 bp):
TCTTCATATTCATCTTCA
Found at i:715738 original size:73 final size:73
Alignment explanation
Indices: 715598--715740 Score: 189
Period size: 73 Copynumber: 2.0 Consensus size: 73
715588 TTTCCTGACC
* *
715598 TAACCAGTATGTTAGGTTGCAAGATCCTTTTGACATCAACATTTCAAAATCTATCAAGTCTTCTT
1 TAACCAGTATGTTAGGTTGCAAGATCCTTTGGACATCAACATTTCAAAATCTATCAAGTATTCTT
715663 TATTTTCT
66 TATTTTCT
* ** * ** *
715671 TAACCATTATGTTAGGTTGTGAGATCCTTTGGACATCAACGTTTTGAACTCTATCAAGTA-TCTT
1 TAACCAGTATGTTAGGTTGCAAGATCCTTTGGACATCAACATTTCAAAATCTATCAAGTATTC-T
715735 TTATTT
65 TTATTT
715741 ATCTATTTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
72 2 0.03
73 58 0.97
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.42
Consensus pattern (73 bp):
TAACCAGTATGTTAGGTTGCAAGATCCTTTGGACATCAACATTTCAAAATCTATCAAGTATTCTT
TATTTTCT
Found at i:728606 original size:34 final size:34
Alignment explanation
Indices: 728568--728657 Score: 85
Period size: 35 Copynumber: 2.6 Consensus size: 34
728558 CAGTTTATTT
* *
728568 GACTAGTGCTGGGCACACATTCGTTGATTTATCC
1 GACTAGAGCTGGGCACACATTCATTGATTTATCC
* *
728602 GACTAGCA-CTGAGCGCAAACA-TCATTGGTTTATCC
1 GACTAG-AGCTG-G-GCACACATTCATTGATTTATCC
* *
728637 AACTAGAGCTGGGCTCACATT
1 GACTAGAGCTGGGCACACATT
728658 TAATATTGTT
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
33 5 0.11
34 12 0.27
35 21 0.48
36 6 0.14
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (34 bp):
GACTAGAGCTGGGCACACATTCATTGATTTATCC
Found at i:731522 original size:104 final size:103
Alignment explanation
Indices: 731275--731572 Score: 285
Period size: 104 Copynumber: 2.8 Consensus size: 103
731265 AATATCCGAT
* * * * * * *
731275 TACTTAGGTTCAAGGCAAAATCAT-CCCAACACGTTAGGGCACAATTTTTTGAGTCCCCTAAAAT
1 TACTTAGGTTCAAAGAAAAATCATACCCAACACGTTAGAGCACAATTTCTCGACTTCCCT-AAAT
* * * * *
731339 AACATAATATTGAGCATTAATTGGTTTCGAATAGGATATTCAAC
65 AAAAAAACATT--GCCTCAATT--TTT-GAATAGGATATTCAAC
* *
731383 TATTTAGGTTCAAAGAAAAATCATACCCAACACGTTAGGGCACAATTTCTCGACTTCCCTAAAAT
1 TACTTAGGTTCAAAGAAAAATCATACCCAACACGTTAGAGCACAATTTCTCGACTTCCCT-AAAT
* * *
731448 AAAAGAACATTGCCTCGATTTTTGAATAGGATATTCAAT
65 AAAAAAACATTGCCTCAATTTTTGAATAGGATATTCAAC
** * ** * *
731487 TACTTAGGTTCGAAA-AAAAATTGTACCTAGTACGTTTGAGCACAATTTCTCGAGTTCCCTAAAT
1 TACTTAGGTTC-AAAGAAAAATCATACCCAACACGTTAGAGCACAATTTCTCGACTTCCCTAAAT
*
731551 AAAAAAACATTGTCTCAATTTT
65 AAAAAAACATTGCCTCAATTTT
731573 GAAAATATTT
Statistics
Matches: 162, Mismatches: 26, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
103 23 0.14
104 62 0.38
105 6 0.04
107 6 0.04
108 21 0.13
109 44 0.27
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.31
Consensus pattern (103 bp):
TACTTAGGTTCAAAGAAAAATCATACCCAACACGTTAGAGCACAATTTCTCGACTTCCCTAAATA
AAAAAACATTGCCTCAATTTTTGAATAGGATATTCAAC
Found at i:731748 original size:13 final size:13
Alignment explanation
Indices: 731732--731773 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
731722 TTATACGAGT
*
731732 AATAAATACACAA
1 AATAAATAAACAA
* *
731745 AATAAATATATAA
1 AATAAATAAACAA
731758 AA-AAATAAACAA
1 AATAAATAAACAA
731770 AATA
1 AATA
731774 CGCAATGCGA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.19
Consensus pattern (13 bp):
AATAAATAAACAA
Found at i:731986 original size:30 final size:30
Alignment explanation
Indices: 731927--732152 Score: 200
Period size: 30 Copynumber: 7.6 Consensus size: 30
731917 AAAAACGAAA
*
731927 TTTTGGAAAG--TACAGGGCCAAATTCAAAT
1 TTTTGGAAAGTTTAC-GGGTCAAATTCAAAT
*
731956 TTTTGGAAAGTTTACGGGTCAAATTTAAAT
1 TTTTGGAAAGTTTACGGGTCAAATTCAAAT
* *
731986 TTTTGGAAAG-TT-CTGGTCAAATTCAAAA
1 TTTTGGAAAGTTTACGGGTCAAATTCAAAT
* *
732014 TTTTGGAAAATTTAGGGGTCAAATTCAAAT
1 TTTTGGAAAGTTTACGGGTCAAATTCAAAT
* * *
732044 TTTTGGAAAGTTTAAGGGTCAAAAATGAAA-
1 TTTTGGAAAGTTTACGGGTC-AAATTCAAAT
*
732074 TTTTAGAAAG-TT-CGAGTGTCAAATT-AGAAT
1 TTTTGGAAAGTTTACG-G-GTCAAATTCA-AAT
* * *
732104 TTTTGGAAAGTTTAGGGGTCAAAAATGAAA-
1 TTTTGGAAAGTTTACGGGTC-AAATTCAAAT
* *
732134 TTTTAGAAAGTTTAGGGGT
1 TTTTGGAAAGTTTACGGGT
732153 TAAAATATCA
Statistics
Matches: 164, Mismatches: 20, Indels: 25
0.78 0.10 0.12
Matches are distributed among these distances:
28 24 0.15
29 23 0.14
30 96 0.59
31 19 0.12
32 2 0.01
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.35
Consensus pattern (30 bp):
TTTTGGAAAGTTTACGGGTCAAATTCAAAT
Found at i:732011 original size:58 final size:59
Alignment explanation
Indices: 731927--732055 Score: 188
Period size: 58 Copynumber: 2.2 Consensus size: 59
731917 AAAAACGAAA
* * * *
731927 TTTTGGAAAGTACAGGGCCAAATTCAAATTTTTGGAAAGTTTACGGGTCAAATTTAAAT
1 TTTTGGAAAGTTCAGGGCCAAATTCAAAATTTTGGAAAATTTACGGGTCAAATTCAAAT
* * *
731986 TTTTGGAAAGTTC-TGGTCAAATTCAAAATTTTGGAAAATTTAGGGGTCAAATTCAAAT
1 TTTTGGAAAGTTCAGGGCCAAATTCAAAATTTTGGAAAATTTACGGGTCAAATTCAAAT
732044 TTTTGGAAAGTT
1 TTTTGGAAAGTT
732056 TAAGGGTCAA
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
58 51 0.81
59 12 0.19
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (59 bp):
TTTTGGAAAGTTCAGGGCCAAATTCAAAATTTTGGAAAATTTACGGGTCAAATTCAAAT
Found at i:732145 original size:90 final size:89
Alignment explanation
Indices: 731945--732157 Score: 245
Period size: 90 Copynumber: 2.4 Consensus size: 89
731935 AGTACAGGGC
* * * * * *
731945 CAAATTCAAATTTTTGGAAAGTTTACGGGTC-AAATTTAAATTTTTGGAAAGTTCTGGTCAAATT
1 CAAAATCAAATTTTTGGAAAGTTTAAGGGTCAAAAATGAAATTTTTAGAAAGTTCAGGTCAAATT
732009 CAAAATTTTGGAAAATTTAGGGGT
66 CAAAATTTTGGAAAATTTAGGGGT
*
732033 CAAATTCAAATTTTTGGAAAGTTTAAGGGTCAAAAATGAAA-TTTTAGAAAGTTCGAGTGTCAAA
1 CAAAATCAAATTTTTGGAAAGTTTAAGGGTCAAAAATGAAATTTTTAGAAAGTTC-AG-GTCAAA
* *
732097 TT-AGAATTTTTGGAAAGTTTAGGGGT
64 TTCA-AAATTTTGGAAAATTTAGGGGT
* * * *
732123 CAAAAATGAAA-TTTTAGAAAGTTTAGGGGTTAAAA
1 C-AAAATCAAATTTTTGGAAAGTTTAAGGGTCAAAA
732158 TATCATTTTT
Statistics
Matches: 108, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
88 42 0.39
89 9 0.08
90 50 0.46
91 7 0.06
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.35
Consensus pattern (89 bp):
CAAAATCAAATTTTTGGAAAGTTTAAGGGTCAAAAATGAAATTTTTAGAAAGTTCAGGTCAAATT
CAAAATTTTGGAAAATTTAGGGGT
Found at i:732782 original size:11 final size:12
Alignment explanation
Indices: 732755--732780 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
732745 GCTTCCAAAC
732755 TTTAGTTTTTTT
1 TTTAGTTTTTTT
732767 TTTAGTTTTTTT
1 TTTAGTTTTTTT
732779 TT
1 TT
732781 AGAAAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.85
Consensus pattern (12 bp):
TTTAGTTTTTTT
Found at i:733206 original size:2 final size:2
Alignment explanation
Indices: 733199--733226 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
733189 TAGTTATTAC
733199 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
733227 TTGTTCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:735667 original size:23 final size:23
Alignment explanation
Indices: 735640--735687 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
735630 AAAGAAGATA
*
735640 ATTCAAATCTCAACAATGGAAAG
1 ATTCAAATCTAAACAATGGAAAG
735663 ATTCAAATCTAAACAATGGAAAG
1 ATTCAAATCTAAACAATGGAAAG
735686 AT
1 AT
735688 GTCAGTGCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.23
Consensus pattern (23 bp):
ATTCAAATCTAAACAATGGAAAG
Found at i:736909 original size:2 final size:2
Alignment explanation
Indices: 736902--736947 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
736892 TTACATTTCC
* * *
736902 AT AT AT AT AC AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
736944 AT AT
1 AT AT
736948 TTATTTATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:737515 original size:11 final size:11
Alignment explanation
Indices: 737489--737525 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
737479 TCTTAGTCAC
737489 ATAAAAAG-AA
1 ATAAAAAGAAA
*
737499 AGAAAAAGAAA
1 ATAAAAAGAAA
737510 ATAAAAAGAAA
1 ATAAAAAGAAA
737521 A-AAAA
1 ATAAAA
737526 TATTTATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 11 0.46
11 13 0.54
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (11 bp):
ATAAAAAGAAA
Found at i:740217 original size:9 final size:10
Alignment explanation
Indices: 740198--740231 Score: 68
Period size: 10 Copynumber: 3.4 Consensus size: 10
740188 TCAGTCACAT
740198 AAAAAGAAAA
1 AAAAAGAAAA
740208 AAAAAGAAAA
1 AAAAAGAAAA
740218 AAAAAGAAAA
1 AAAAAGAAAA
740228 AAAA
1 AAAA
740232 TATTTATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:742837 original size:46 final size:46
Alignment explanation
Indices: 742758--742910 Score: 173
Period size: 46 Copynumber: 3.3 Consensus size: 46
742748 TGAGATGATA
* * * * *
742758 GCTTTAATCTACCCCTCTTGATTT-AGGGTTAAGAGATTAGACGGTA
1 GCTTCAATCTGCCCCTCTTGATTTAAGGG-TAAGAGATTGGATGGTG
* * *
742804 GATTCAGTCTGCCCCTCTTTATTTAAGGGTAAGAGATTGGATGGTG
1 GCTTCAATCTGCCCCTCTTGATTTAAGGGTAAGAGATTGGATGGTG
* * * * *
742850 GCTTGATTCTACGCCTCTTGATTTAGGGGTAAGAGATTGGATGGTG
1 GCTTCAATCTGCCCCTCTTGATTTAAGGGTAAGAGATTGGATGGTG
742896 GCTTCAATCTGCCCC
1 GCTTCAATCTGCCCC
742911 ATGATCGGGG
Statistics
Matches: 87, Mismatches: 19, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
46 83 0.95
47 4 0.05
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (46 bp):
GCTTCAATCTGCCCCTCTTGATTTAAGGGTAAGAGATTGGATGGTG
Found at i:742934 original size:42 final size:42
Alignment explanation
Indices: 742830--743072 Score: 174
Period size: 42 Copynumber: 5.8 Consensus size: 42
742820 CTTTATTTAA
* * * * *
742830 GGGTAAGAGATTGGATGGTGGCTTGATTCTACGCCTCTTGATTTAG
1 GGGTAAGAGATTGGATGGTGGCTTCAATCT--GCCCCATGA--TCG
742876 GGGTAAGAGATTGGATGGTGGCTTCAATCTGCCCCATGATCG
1 GGGTAAGAGATTGGATGGTGGCTTCAATCTGCCCCATGATCG
* * ** *
742918 GGGTAAGAGATTGGATGATGTCTTCAAGGTACCCCATGATCG
1 GGGTAAGAGATTGGATGGTGGCTTCAATCTGCCCCATGATCG
* * * ** * * * *
742960 AGGTAAGAGATTGAATGATGTTTTCAGTATGCCTCATGATTG
1 GGGTAAGAGATTGGATGGTGGCTTCAATCTGCCCCATGATCG
* *
743002 AGGTAAGAGATTGGA---TGGCTTCAA-CTTGCCCCGTGATCG
1 GGGTAAGAGATTGGATGGTGGCTTCAATC-TGCCCCATGATCG
* * **
743041 GAGTAAAAGATTGG-T-GTGTTTTCAATCTGCCC
1 GGGTAAGAGATTGGATGGTGGCTTCAATCTGCCC
743073 TCTGATTAGG
Statistics
Matches: 161, Mismatches: 32, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
39 27 0.17
40 12 0.07
41 1 0.01
42 86 0.53
44 7 0.04
46 28 0.17
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (42 bp):
GGGTAAGAGATTGGATGGTGGCTTCAATCTGCCCCATGATCG
Found at i:743139 original size:37 final size:38
Alignment explanation
Indices: 743061--743143 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 38
743051 TTGGTGTGTT
*
743061 TTCAATCTGCCCTCTGATTAGGGAAAAAGATTGGATGC
1 TTCAATCTGCCCTCTGATTAGGGAAAAAGATTAGATGC
* * * *
743099 TTCAATTTTCCCTCTGATTAGGG-TAAAGATTAGATTC
1 TTCAATCTGCCCTCTGATTAGGGAAAAAGATTAGATGC
743136 TTCAATCT
1 TTCAATCT
743144 AAGATTCGAT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
37 18 0.46
38 21 0.54
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (38 bp):
TTCAATCTGCCCTCTGATTAGGGAAAAAGATTAGATGC
Found at i:743149 original size:20 final size:20
Alignment explanation
Indices: 743124--743163 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
743114 GATTAGGGTA
743124 AAGATTAGATTCTTCAATCT
1 AAGATTAGATTCTTCAATCT
*
743144 AAGATTCGATTCTTCAATCT
1 AAGATTAGATTCTTCAATCT
743164 GCCCCATGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (20 bp):
AAGATTAGATTCTTCAATCT
Found at i:743312 original size:78 final size:78
Alignment explanation
Indices: 743144--743583 Score: 551
Period size: 78 Copynumber: 5.6 Consensus size: 78
743134 TCTTCAATCT
* * * *
743144 AAGATTCGATTCTTCAATCTGCCCCATGGTCAGGGTAAGAGATTGGATGATGTCCTCAATCTGCC
1 AAGATTGGATGCTTCAATCTGCCCCATGATCAGGGTAAGAGATTGG-TG-TGTCTTCAATCTGCC
*
743209 CTCTGATTAGGATAA
64 CTCTGATTAGGGTAA
* *
743224 AAGATTGGATGCATCAATCTGCCCCATGATCAGGGTAAGAGATTGGTGTGTCTTCAATCTACCCT
1 AAGATTGGATGCTTCAATCTGCCCCATGATCAGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCT
*
743289 CTGATTAAGGTAA
66 CTGATTAGGGTAA
* * *
743302 AAGATTGGATGCTTCAATCTGCCTCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTACCCT
1 AAGATTGGATGCTTCAATCTGCCCCATGATCAGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCT
743367 CTGATTAGGGTAA
66 CTGATTAGGGTAA
* * * * * *
743380 AAGGTTGGATGCTTCAATTTGTCCCATGGT-TGGGATAAGAGATTGGATGATGTCTTAAATCTGC
1 AAGATTGGATGCTTCAATCTGCCCCATGATCAGGG-TAAGAGATTGG-TG-TGTCTTCAATCTGC
*
743444 CTTCTGATTAGGGTAA
63 CCTCTGATTAGGGTAA
* ** * * *
743460 AAAATCAGATGCTTCAATCTACCTCATGATC-GCGGTAAGAGATTTGTGTGTCTTCAATCTGCCC
1 AAGATTGGATGCTTCAATCTGCCCCATGATCAG-GGTAAGAGATTGGTGTGTCTTCAATCTGCCC
*
743524 TCTAATTAGGGTAA
65 TCTGATTAGGGTAA
* ** *
743538 AAGATTAGATGCTTCAATCTGCCCCATGATTGGGGTATGAGATTGG
1 AAGATTGGATGCTTCAATCTGCCCCATGATCAGGGTAAGAGATTGG
743584 ATGGTAGCTT
Statistics
Matches: 313, Mismatches: 41, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
77 3 0.01
78 200 0.64
79 7 0.02
80 101 0.32
81 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (78 bp):
AAGATTGGATGCTTCAATCTGCCCCATGATCAGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCT
CTGATTAGGGTAA
Found at i:743459 original size:158 final size:156
Alignment explanation
Indices: 743144--743586 Score: 582
Period size: 158 Copynumber: 2.8 Consensus size: 156
743134 TCTTCAATCT
* * * * * *
743144 AAGATTCGATTCTTCAATCTGCCCCATGGTCAGGGTAAGAGATTGGATGATGTCCTCAATCTGCC
1 AAGATTAGATGCTTCAATCTGCCTCATGATCGGGGTAAGAGATTGG-TG-TGTCTTCAATCTGCC
* * *
743209 CTCTGATTAGGATAAAAGATTGGATGCATCAATCTGCCCCATGATCAGGGTAAGAGATTGG-TGT
64 CTCTGATTAGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGAT-TGGGTAAGAGATTGGATGT
*
743273 GTCTTCAATCTACCCTCTGATTAAGGTAA
128 GTCTTAAATCTACCCTCTGATTAAGGTAA
* *
743302 AAGATTGGATGCTTCAATCTGCCTCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTACCCT
1 AAGATTAGATGCTTCAATCTGCCTCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCT
* * * *
743367 CTGATTAGGGTAAAAGGTTGGATGCTTCAATTTGTCCCATGGTTGGGATAAGAGATTGGATGATG
66 CTGATTAGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATTGGG-TAAGAGATTGGATG-TG
* * *
743432 TCTTAAATCTGCCTTCTGATTAGGGTAA
129 TCTTAAATCTACCCTCTGATTAAGGTAA
* * * * *
743460 AAAATCAGATGCTTCAATCTACCTCATGATCGCGGTAAGAGATTTGTGTGTCTTCAATCTGCCCT
1 AAGATTAGATGCTTCAATCTGCCTCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCT
* * *
743525 CTAATTAGGGTAAAAGATTAGATGCTTCAATCTGCCCCATGATTGGGGTATGAGATTGGATG
66 CTGATTAGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATT-GGGTAAGAGATTGGATG
743587 GTAGCTTCGC
Statistics
Matches: 249, Mismatches: 32, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
155 3 0.01
156 63 0.25
157 4 0.02
158 176 0.71
159 3 0.01
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (156 bp):
AAGATTAGATGCTTCAATCTGCCTCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCT
CTGATTAGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATTGGGTAAGAGATTGGATGTGTC
TTAAATCTACCCTCTGATTAAGGTAA
Found at i:743582 original size:236 final size:236
Alignment explanation
Indices: 743155--743583 Score: 637
Period size: 236 Copynumber: 1.8 Consensus size: 236
743145 AGATTCGATT
*
743155 CTTCAATCTGCCCCATGGTCAGGGTAAGAGATTGGATGATGTCCTCAATCTGCCCTCTGATTAGG
1 CTTCAATCTGCCCCATGGTCAGGGTAAGAGATTGGATGATGTCCTAAATCTGCCCTCTGATTAGG
* ** *
743220 ATAAAAGATTGGATGCATCAATCTGCCCCATGATCAGGGTAAGAGATTGGTGTGTCTTCAATCTA
66 ATAAAAAATCAGATGCATCAATCTACCCCATGATCAGGGTAAGAGATTGGTGTGTCTTCAATCTA
* * *
743285 CCCTCTGATTAAGGTAAAAGATTGGATGCTTCAATCTGCCTCATGATCGGGGTAAGAGATTGGTG
131 CCCTCTAATTAAGGTAAAAGATTAGATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTG
743350 TGTCTTCAATCTACCCTCTGATTAGGGTAAAAGGTTGGATG
196 TGTCTTCAATCTACCCTCTGATTAGGGTAAAAGGTTGGATG
* * * * *
743391 CTTCAATTTGTCCCATGGT-TGGGATAAGAGATTGGATGATGTCTTAAATCTGCCTTCTGATTAG
1 CTTCAATCTGCCCCATGGTCAGGG-TAAGAGATTGGATGATGTCCTAAATCTGCCCTCTGATTAG
* * * *
743455 GGTAAAAAATCAGATGCTTCAATCTACCTCATGATC-GCGGTAAGAGATTTGTGTGTCTTCAATC
65 GATAAAAAATCAGATGCATCAATCTACCCCATGATCAG-GGTAAGAGATTGGTGTGTCTTCAATC
* * * *
743519 TGCCCTCTAATTAGGGTAAAAGATTAGATGCTTCAATCTGCCCCATGATTGGGGTATGAGATTGG
129 TACCCTCTAATTAAGGTAAAAGATTAGATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGG
743584 ATGGTAGCTT
Statistics
Matches: 170, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
235 4 0.02
236 166 0.98
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (236 bp):
CTTCAATCTGCCCCATGGTCAGGGTAAGAGATTGGATGATGTCCTAAATCTGCCCTCTGATTAGG
ATAAAAAATCAGATGCATCAATCTACCCCATGATCAGGGTAAGAGATTGGTGTGTCTTCAATCTA
CCCTCTAATTAAGGTAAAAGATTAGATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTG
TGTCTTCAATCTACCCTCTGATTAGGGTAAAAGGTTGGATG
Found at i:744070 original size:93 final size:93
Alignment explanation
Indices: 743895--744138 Score: 233
Period size: 93 Copynumber: 2.6 Consensus size: 93
743885 TCCCATCAAA
* * * * ** *
743895 TCTCTAAGGTATAAGGTTTGTCGTTGCGGCTTTAACTTTTCCCTCCACATCTTTAGGGTATAAGA
1 TCTCTAAGGTACAAGGTTCGTCGTTGCGGCTTCAACCTTTCCCTCCACATCTCCAGGGTAGAAGA
**
743960 TTCGTTGTTACAGCTTCAATCTTTCACG
66 TTCGACGTTACAGCTTCAATCTTTCACG
* * **
743988 TCTCTAAGGTACGAGGTTCGTCGTTGCGGCTTCAACCTTTCCCTCCATATCTCCCTGGTAGAAGA
1 TCTCTAAGGTACAAGGTTCGTCGTTGCGGCTTCAACCTTTCCCTCCACATCTCCAGGGTAGAAGA
* *
744053 TTCGACGTTGC-GACTTCAATCTTTCCTATCTCA
66 TTCGACGTTACAG-CTTCAATCTTT-C-A---CG
* * *
744086 TCTCTAAGGTACAAGGCTT-GCCGTTACGGCTTCAATCTTTCCCAT-CACATCTC
1 TCTCTAAGGTACAAGG-TTCGTCGTTGCGGCTTCAACCTTTCCC-TCCACATCTC
744139 TAAGGTACAA
Statistics
Matches: 123, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
92 1 0.01
93 73 0.59
94 1 0.01
95 1 0.01
98 44 0.36
99 3 0.02
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.36
Consensus pattern (93 bp):
TCTCTAAGGTACAAGGTTCGTCGTTGCGGCTTCAACCTTTCCCTCCACATCTCCAGGGTAGAAGA
TTCGACGTTACAGCTTCAATCTTTCACG
Found at i:744119 original size:49 final size:47
Alignment explanation
Indices: 743877--744323 Score: 231
Period size: 49 Copynumber: 9.2 Consensus size: 47
743867 CGTTGTGGCC
* * * * *
743877 TCAATCTTTCCCATCAAATCTCTAAGGTATAAGGTTTGTCGTTGCGGCT
1 TCAATCTTT-CCATC-CATCTCTAAGGTACAAGGTTCGCCGTTACGGCT
* * * * * * ** *
743926 TTAA-CTTTTCCCTCCACATCTTTAGGGTATAAGATTCGTTGTTACAGCT
1 TCAATC-TTTCCAT-C-CATCTCTAAGGTACAAGGTTCGCCGTTACGGCT
* * * *
743975 TCAATCTTT-CA--CGTCTCTAAGGTACGAGGTTCGTCGTTGCGGCT
1 TCAATCTTTCCATCCATCTCTAAGGTACAAGGTTCGCCGTTACGGCT
* * *** * * * * *
744019 TCAACCTTTCCCTCCATATCTCCCTGGTAGAAGATTCGACGTTGCGACT
1 TCAATCTTTCCATCC--ATCTCTAAGGTACAAGGTTCGCCGTTACGGCT
744068 TCAATCTTTCCTATCTCATCTCTAAGGTACAAGGCTT-GCCGTTACGGCT
1 TCAATCTTTCC-ATC-CATCTCTAAGGTACAAGG-TTCGCCGTTACGGCT
* * *
744117 TCAATCTTTCCCATCACATCTCTAAGGTACAATGTTCGCCATTATGGCT
1 TCAATCTTT-CCATC-CATCTCTAAGGTACAAGGTTCGCCGTTACGGCT
** * * * * * * *
744166 TTGACCTTTCCCTCCATATCTTCATGGTACAAGATTCGCTGTTGCGGCT
1 TCAATCTTTCCATCCATCTC-T-AAGGTACAAGGTTCGCCGTTACGGCT
* *
744215 TCAATCTTTCCCA-CCACGTCTCGAAGGTACAAGGTTCGCCATTACGGCT
1 TCAATCTTT-CCATCCA--TCTCTAAGGTACAAGGTTCGCCGTTACGGCT
* * * ** * * *
744264 TCAACCTTTCCCTCCATATCTCTAGGGTATTAGATTTGCCGTTACGACT
1 TCAATCTTTCCATCC--ATCTCTAAGGTACAAGGTTCGCCGTTACGGCT
744313 TCAATCTTTCC
1 TCAATCTTTCC
744324 CTTCAAACTT
Statistics
Matches: 297, Mismatches: 80, Indels: 42
0.71 0.19 0.10
Matches are distributed among these distances:
44 32 0.11
45 1 0.00
47 6 0.02
48 14 0.05
49 230 0.77
50 9 0.03
51 5 0.02
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.35
Consensus pattern (47 bp):
TCAATCTTTCCATCCATCTCTAAGGTACAAGGTTCGCCGTTACGGCT
Found at i:744175 original size:98 final size:96
Alignment explanation
Indices: 743988--744324 Score: 275
Period size: 98 Copynumber: 3.4 Consensus size: 96
743978 ATCTTTCACG
* * * * * * *** *
743988 TCTCTAAGGTACGAGG-TTCGTCGTTGCGGCTTCAACCTTTCCCTCCATATCTCCCTGGTAGAAG
1 TCTCTAAGGTACAAGGATT-GCCGTTACGGCTTCAATCTTTCCCACCACATCTCGAAGGTACAAG
* * * * * * *
744052 ATTCGACGTTGCGACTTCAATCTTTCCTATCTCA
65 GTTCGCCATTACGGCTTCAACCTTTCC-CTC-CA
* * * *
744086 TCTCTAAGGTACAAGGCTTGCCGTTACGGCTTCAATCTTTCCCATCACATCTCTAAGGTACAATG
1 TCTCTAAGGTACAAGGATTGCCGTTACGGCTTCAATCTTTCCCACCACATCTCGAAGGTACAAGG
* **
744151 TTCGCCATTATGGCTTTGACCTTTCCCTCCA
66 TTCGCCATTACGGCTTCAACCTTTCCCTCCA
* * * * *
744182 TATCTTCATGGTACAA-GATTCGCTGTTGCGGCTTCAATCTTTCCCACCACGTCTCGAAGGTACA
1 TCTC-T-AAGGTACAAGGATT-GCCGTTACGGCTTCAATCTTTCCCACCACATCTCGAAGGTACA
744246 AGGTTCGCCATTACGGCTTCAACCTTTCCCTCCATA
63 AGGTTCGCCATTACGGCTTCAACCTTTCCCTCC--A
* ** *
744282 TCTCTAGGGTATTA-GATTTGCCGTTACGACTTCAATCTTTCCC
1 TCTCTAAGGTACAAGGA-TTGCCGTTACGGCTTCAATCTTTCCC
744325 TTCAAACTTG
Statistics
Matches: 191, Mismatches: 41, Indels: 14
0.78 0.17 0.06
Matches are distributed among these distances:
96 5 0.03
97 6 0.03
98 171 0.90
99 5 0.03
100 4 0.02
ACGTcount: A:0.20, C:0.30, G:0.17, T:0.34
Consensus pattern (96 bp):
TCTCTAAGGTACAAGGATTGCCGTTACGGCTTCAATCTTTCCCACCACATCTCGAAGGTACAAGG
TTCGCCATTACGGCTTCAACCTTTCCCTCCA
Found at i:744182 original size:147 final size:147
Alignment explanation
Indices: 744022--744292 Score: 377
Period size: 147 Copynumber: 1.8 Consensus size: 147
744012 TGCGGCTTCA
* * * * *
744022 ACCTTTCCCTCCATATCTCCCTGGTAGAAGATTCGAC-GTTGCGACTTCAATCTTTCCTATCTCA
1 ACCTTTCCCTCCATATCTCCATGGTACAAGATTCG-CTGTTGCGACTTCAATCTTTCCCACCACA
* * *
744086 TCTCTAAGGTACAAGGCTT-GCCGTTACGGCTTCAATCTTTCCCAT-CACATCTCTAAGGTACAA
65 TCTCGAAGGTACAAGG-TTCGCCATTACGGCTTCAACCTTTCCC-TCCACATCTCTAAGGTACAA
744149 TGTTCGCCATTATGGCTTTG
128 TGTTCGCCATTATGGCTTTG
* * *
744169 ACCTTTCCCTCCATATCTTCATGGTACAAGATTCGCTGTTGCGGCTTCAATCTTTCCCACCACGT
1 ACCTTTCCCTCCATATCTCCATGGTACAAGATTCGCTGTTGCGACTTCAATCTTTCCCACCACAT
* *
744234 CTCGAAGGTACAAGGTTCGCCATTACGGCTTCAACCTTTCCCTCCATATCTCTAGGGTA
66 CTCGAAGGTACAAGGTTCGCCATTACGGCTTCAACCTTTCCCTCCACATCTCTAAGGTA
744293 TTAGATTTGC
Statistics
Matches: 108, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
146 4 0.04
147 104 0.96
ACGTcount: A:0.21, C:0.31, G:0.16, T:0.33
Consensus pattern (147 bp):
ACCTTTCCCTCCATATCTCCATGGTACAAGATTCGCTGTTGCGACTTCAATCTTTCCCACCACAT
CTCGAAGGTACAAGGTTCGCCATTACGGCTTCAACCTTTCCCTCCACATCTCTAAGGTACAATGT
TCGCCATTATGGCTTTG
Found at i:744322 original size:147 final size:147
Alignment explanation
Indices: 743983--744325 Score: 363
Period size: 147 Copynumber: 2.3 Consensus size: 147
743973 CTTCAATCTT
* * * * * * * *
743983 TCACGTCTCTAAGGTACGAGGTTCGTCGTTGCGGCTTCAACCTTTCCCTCCATATCTCCCTGGTA
1 TCACATCTCTAAGGTACAATGTTCGCCATTACGACTTCAACCTTTCCCTCCATATCTCCATGGTA
* * * * * *
744048 GAAGATTCGACGTTGCGACTTCAATCTTTCCTATCTCATCTCTAAGGTACAAGGCTTGCCGTTAC
66 CAAGATTCGACGTTGCGACTTCAATCTTTCCCACCACATCTCGAAGGTACAAGGCTTGCCATTAC
*
744113 GGCTTCAATCTTTCCCA
131 GGCTTCAACCTTTCCCA
* * ** *
744130 TCACATCTCTAAGGTACAATGTTCGCCATTATGGCTTTGACCTTTCCCTCCATATCTTCATGGTA
1 TCACATCTCTAAGGTACAATGTTCGCCATTACGACTTCAACCTTTCCCTCCATATCTCCATGGTA
* *
744195 CAAGATTCG-CTGTTGCGGCTTCAATCTTTCCCACCACGTCTCGAAGGTACAAGG-TTCGCCATT
66 CAAGATTCGAC-GTTGCGACTTCAATCTTTCCCACCACATCTCGAAGGTACAAGGCTT-GCCATT
744258 ACGGCTTCAACCTTTCCC-
129 ACGGCTTCAACCTTTCCCA
* * * * *
744276 TCCATATCTCTAGGGTATTAGAT-TT-GCCGTTACGACTTCAATCTTTCCCT
1 T-CACATCTCTAAGGTA-CA-ATGTTCGCCATTACGACTTCAACCTTTCCCT
744326 TCAAACTTGT
Statistics
Matches: 162, Mismatches: 29, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
146 4 0.02
147 153 0.94
148 3 0.02
149 2 0.01
ACGTcount: A:0.20, C:0.30, G:0.17, T:0.34
Consensus pattern (147 bp):
TCACATCTCTAAGGTACAATGTTCGCCATTACGACTTCAACCTTTCCCTCCATATCTCCATGGTA
CAAGATTCGACGTTGCGACTTCAATCTTTCCCACCACATCTCGAAGGTACAAGGCTTGCCATTAC
GGCTTCAACCTTTCCCA
Found at i:745294 original size:20 final size:20
Alignment explanation
Indices: 745250--745300 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
745240 TTTTTCTTCT
*
745250 TTTTTC-TTTTCCTTTCCTT
1 TTTTTCTTTTTCCTTTCCTC
745269 TCTTTTCTTTTTCTCTTTCC-C
1 T-TTTTCTTTTTC-CTTTCCTC
*
745290 TTTTTATTTTT
1 TTTTTCTTTTT
745301 TATTTTTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.04
20 14 0.52
21 6 0.22
22 6 0.22
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTTCTTTTTCCTTTCCTC
Found at i:745301 original size:27 final size:26
Alignment explanation
Indices: 745232--745308 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 26
745222 TTTCACCTCA
*
745232 CCCTCTTCTTTTTCTTCTTTTTTCTTT
1 CCCT-TTCTTTTTTTTCTTTTTTCTTT
* *
745259 TCCTTTCCTTTCTTTTCTTTTTCTCTTT
1 CCCTTT-CTTTTTTTTCTTTTT-TCTTT
*
745287 CCCTTT-TTATTTTTTATTTTTT
1 CCCTTTCTT-TTTTTTCTTTTTT
745309 TGGGTGAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
26 5 0.12
27 26 0.63
28 10 0.24
ACGTcount: A:0.03, C:0.25, G:0.00, T:0.73
Consensus pattern (26 bp):
CCCTTTCTTTTTTTTCTTTTTTCTTT
Found at i:749986 original size:104 final size:105
Alignment explanation
Indices: 749747--749988 Score: 285
Period size: 108 Copynumber: 2.3 Consensus size: 105
749737 TTTAAACGAA
* * *
749747 ATATTCAATTACTTAGGTTCAACGCAAAATCATACCCAACATGTTAGGGCACAATTTTTCGATCC
1 ATATTCAATTATTTAGGTTCAA-GAAAAATCATACCCAACATGTTAGGGCACAATTTCTCGATCC
* * * *
749812 TCTAAAATAATAGAATATTGAACATTAATTGGTTCCAAATAGG
65 TCCAAAATAAAAGAACATTG-ACATCAATT-GTTCCAAATAGG
*
749855 ATATTCAATTATATAGGTTCAAAGAAAAATCATACCCAACATGTTAGGGCACAATTTCTCGACTT
1 ATATTCAATTATTTAGGTTC-AAGAAAAATCATACCCAACATGTTAGGGCACAATTTCTCGA--T
* * **
749920 CC-CCAAAATAAAAGAACATTG-CCTCGATT-TT-TGAATAGG
63 CCTCCAAAATAAAAGAACATTGACATCAATTGTTCCAAATAGG
749959 ATATTCAATTATTTAGGTTCGAAGAAAAAT
1 ATATTCAATTATTTAGGTTC-AAGAAAAAT
749989 TGTACCTAGT
Statistics
Matches: 117, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
104 34 0.29
105 2 0.02
107 5 0.04
108 55 0.47
109 18 0.15
110 3 0.03
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (105 bp):
ATATTCAATTATTTAGGTTCAAGAAAAATCATACCCAACATGTTAGGGCACAATTTCTCGATCCT
CCAAAATAAAAGAACATTGACATCAATTGTTCCAAATAGG
Found at i:750012 original size:104 final size:102
Alignment explanation
Indices: 749849--750052 Score: 248
Period size: 104 Copynumber: 2.0 Consensus size: 102
749839 ATTGGTTCCA
* *
749849 AATAGGATATTCAATTATATAGGTTCAAAGAAAAATCATACCCAACATGTTAGGGCACAATTTCT
1 AATAGGATATTCAATTATATAGGTTCAAAGAAAAATCATACCCAACACGTTAGAGCACAATTTCT
749914 CGACTTCCCCAAAATAAA-AGAACATTGCCTCGATTTTTG
66 CGACTT-CCCAAAATAAAGA-AACATTGCCTC-ATTTTTG
* * ** * ** * *
749953 AATAGGATATTCAATTATTTAGGTTCGAAGAAAAATTGTACCTAGTACGTTTGATCACAATTTCT
1 AATAGGATATTCAATTATATAGGTTCAAAGAAAAATCATACCCAACACGTTAGAGCACAATTTCT
* * *
750018 CGAGTTCCCTAAATAAAGAAACATTTCCTCATTTT
66 CGACTTCCCAAAATAAAGAAACATTGCCTCATTTT
750053 GAAAATATTT
Statistics
Matches: 85, Mismatches: 14, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
102 5 0.06
103 20 0.24
104 60 0.71
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (102 bp):
AATAGGATATTCAATTATATAGGTTCAAAGAAAAATCATACCCAACACGTTAGAGCACAATTTCT
CGACTTCCCAAAATAAAGAAACATTGCCTCATTTTTG
Found at i:750478 original size:29 final size:30
Alignment explanation
Indices: 750439--750524 Score: 99
Period size: 29 Copynumber: 3.0 Consensus size: 30
750429 AATTTGAATA
*
750439 TTTT-GAAAGTTTATGGGTTAAATT-AAAT
1 TTTTGGAAAGTTTACGGGTTAAATTCAAAT
750467 TTTTGGAAAG-TT-CGAGGTTAAATTCAAAT
1 TTTTGGAAAGTTTACG-GGTTAAATTCAAAT
* * *
750496 TTTTGAAAAATTTAGGGGTTAAATTCAAA
1 TTTTGGAAAGTTTACGGGTTAAATTCAAA
750525 AAACAAAATT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
27 1 0.02
28 15 0.31
29 17 0.35
30 15 0.31
31 1 0.02
ACGTcount: A:0.37, C:0.03, G:0.19, T:0.41
Consensus pattern (30 bp):
TTTTGGAAAGTTTACGGGTTAAATTCAAAT
Found at i:750521 original size:30 final size:29
Alignment explanation
Indices: 750439--750524 Score: 102
Period size: 30 Copynumber: 3.0 Consensus size: 29
750429 AATTTGAATA
* *
750439 TTTTGAAAGTTTATGGGTTAAATT-AAAT
1 TTTTGAAAATTTAGGGGTTAAATTCAAAT
* * * *
750467 TTTTGGAAAGTTCGAGGTTAAATTCAAAT
1 TTTTGAAAATTTAGGGGTTAAATTCAAAT
750496 TTTTGAAAAATTTAGGGGTTAAATTCAAA
1 TTTTG-AAAATTTAGGGGTTAAATTCAAA
750525 AAACAAAATT
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
28 18 0.39
29 9 0.20
30 19 0.41
ACGTcount: A:0.37, C:0.03, G:0.19, T:0.41
Consensus pattern (29 bp):
TTTTGAAAATTTAGGGGTTAAATTCAAAT
Found at i:750584 original size:30 final size:31
Alignment explanation
Indices: 750530--750604 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 31
750520 TCAAAAAACA
* * *
750530 AAATTTTGGAAAG-TTCGAGTGTC-AAATTAG
1 AAATTTTGGAAAGTTTAGAGGGTCAAAAAT-G
*
750560 AATTTTTGGAAAGTTTAG-GGGTCAAAAATG
1 AAATTTTGGAAAGTTTAGAGGGTCAAAAATG
750590 AAATTTTGGAAAGTT
1 AAATTTTGGAAAGTT
750605 CGGAGGTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
30 31 0.82
31 7 0.18
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.35
Consensus pattern (31 bp):
AAATTTTGGAAAGTTTAGAGGGTCAAAAATG
Found at i:751349 original size:14 final size:14
Alignment explanation
Indices: 751316--751349 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
751306 ACCCTAGATC
*
751316 TTTTTTCTTTTTAT
1 TTTTTTATTTTTAT
*
751330 GTTTTTATTTTTAT
1 TTTTTTATTTTTAT
751344 TTTTTT
1 TTTTTT
751350 GTTCGAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.03, G:0.03, T:0.85
Consensus pattern (14 bp):
TTTTTTATTTTTAT
Found at i:753424 original size:25 final size:26
Alignment explanation
Indices: 753388--753541 Score: 163
Period size: 26 Copynumber: 6.0 Consensus size: 26
753378 CCCAGAACAG
* *
753388 AGTTTAGCTCATACGAGCCCAGATAG
1 AGTTTAGCTCATAAGAGCCCAGATAA
* * *
753414 AG-TTAGCTCATATGAG-CCAGACAG
1 AGTTTAGCTCATAAGAGCCCAGATAA
* *
753438 AGTTTAGCTCGTAAGAG-CCAGACAA
1 AGTTTAGCTCATAAGAGCCCAGATAA
753463 AGTTTAGCTCATAAGAGCCCAG-TCAA
1 AGTTTAGCTCATAAGAGCCCAGAT-AA
**
753489 AGTTTAGCTCATAAGAGAACAGATAA
1 AGTTTAGCTCATAAGAGCCCAGATAA
** *
753515 AAATTAGCTCATATGAGCCCAGATAA
1 AGTTTAGCTCATAAGAGCCCAGATAA
753541 A
1 A
753542 ATATTGCTCT
Statistics
Matches: 110, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
24 9 0.08
25 48 0.44
26 52 0.47
27 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (26 bp):
AGTTTAGCTCATAAGAGCCCAGATAA
Found at i:753442 original size:50 final size:49
Alignment explanation
Indices: 753379--753533 Score: 175
Period size: 50 Copynumber: 3.0 Consensus size: 49
753369 TCTTTCGAAC
* *
753379 CCAGAACAGAGTTTAGCTCATACGAGCCCAGATAGAGTTAGCTCATATGAG
1 CCAG-ACAGAGTTTAGCTCATAAGAG-CCAGATAAAGTTAGCTCATATGAG
* * *
753430 CCAGACAGAGTTTAGCTCGTAAGAGCCAGACAAAGTTTAGCTCATAAGAG
1 CCAGACAGAGTTTAGCTCATAAGAGCCAGATAAAG-TTAGCTCATATGAG
* * * *
753480 CCCAGTCAAAGTTTAGCTCATAAGAGAACAGATAAAAATTAGCTCATATGAG
1 -CCAGACAGAGTTTAGCTCATAAGAG-CCAGAT-AAAGTTAGCTCATATGAG
753532 CC
1 CC
753534 CAGATAAAAT
Statistics
Matches: 88, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
49 8 0.09
50 32 0.36
51 28 0.32
52 17 0.19
53 3 0.03
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (49 bp):
CCAGACAGAGTTTAGCTCATAAGAGCCAGATAAAGTTAGCTCATATGAG
Found at i:753491 original size:26 final size:26
Alignment explanation
Indices: 753388--753536 Score: 137
Period size: 25 Copynumber: 5.8 Consensus size: 26
753378 CCCAGAACAG
* *
753388 AGTTTAGCTCATACGAGCCCAGAT-AG
1 AGTTTAGCTCATAAGAGCCCAG-TCAA
* * *
753414 AG-TTAGCTCATATGAG-CCAGACAG
1 AGTTTAGCTCATAAGAGCCCAGTCAA
* *
753438 AGTTTAGCTCGTAAGAG-CCAGACAA
1 AGTTTAGCTCATAAGAGCCCAGTCAA
753463 AGTTTAGCTCATAAGAGCCCAGTCAA
1 AGTTTAGCTCATAAGAGCCCAGTCAA
**
753489 AGTTTAGCTCATAAGAGAACAGAT-AA
1 AGTTTAGCTCATAAGAGCCCAG-TCAA
** *
753515 AAATTAGCTCATATGAGCCCAG
1 AGTTTAGCTCATAAGAGCCCAG
753537 ATAAAATATT
Statistics
Matches: 105, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
24 8 0.08
25 48 0.46
26 48 0.46
27 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.22
Consensus pattern (26 bp):
AGTTTAGCTCATAAGAGCCCAGTCAA
Found at i:753563 original size:26 final size:26
Alignment explanation
Indices: 753391--753560 Score: 107
Period size: 26 Copynumber: 6.6 Consensus size: 26
753381 AGAACAGAGT
* * *
753391 TTAGCTCATACGAGCCCAGAT-AGAG
1 TTAGCTCATATGAGCCCAGATAAAAA
* * **
753416 TTAGCTCATATGAG-CCAGACAGAGT
1 TTAGCTCATATGAGCCCAGATAAAAA
* * * **
753441 TTAGCTCGTAAGAG-CCAGACAAAGT
1 TTAGCTCATATGAGCCCAGATAAAAA
* **
753466 TTAGCTCATAAGAGCCCAG-TCAAAGT
1 TTAGCTCATATGAGCCCAGAT-AAAAA
* **
753492 TTAGCTCATAAGAGAACAGATAAAAA
1 TTAGCTCATATGAGCCCAGATAAAAA
753518 TTAGCTCATATGAGCCCAGATAAAATA
1 TTAGCTCATATGAGCCCAGATAAAA-A
*
753545 TT-GCTCTTATCGAGCC
1 TTAGCTCATAT-GAGCC
753561 AGAGTCCAGA
Statistics
Matches: 120, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
24 5 0.04
25 48 0.40
26 58 0.48
27 9 0.08
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.24
Consensus pattern (26 bp):
TTAGCTCATATGAGCCCAGATAAAAA
Found at i:754906 original size:224 final size:224
Alignment explanation
Indices: 754509--754956 Score: 790
Period size: 224 Copynumber: 2.0 Consensus size: 224
754499 AGTCCACTAC
754509 TCTTCCAATGGTATAATTACCATTCAAGTCCCTTAGCTTACCTTTCAATTAGCATCTAATGTTTT
1 TCTTCCAATGGTATAATTACCATTCAAGTCCCTTAGCTTACCTTTCAATTAGCATCTAATGTTTT
* *
754574 TAATTCATAGAATTAAGATTTTGTACCTTTTACGATTTAATCTTTTTCACTTAATCAACTATCTA
66 TAATTCATAGAATTAAGATTTTGCACCTTTTACGATTTAATCATTTTCACTTAATCAACTATCTA
* *
754639 AACATTAAAATTTCATAACCAAATTTTAATACGACATTAATGATCTCGTAAATATTAAATAATTA
131 AACATTAAAATTTCATAACCAAATTTTAATACGAAACTAATGATCTCGTAAATATTAAATAATTA
754704 ATATTTATGGTCTAACACATCGACATGGT
196 ATATTTATGGTCTAACACATCGACATGGT
*
754733 TCTTGCAATGGTATAATTACCATTCAAG-CACCTTAGCTTACCTTTCAATTAGCATCTAATGTTT
1 TCTTCCAATGGTATAATTACCATTCAAGTC-CCTTAGCTTACCTTTCAATTAGCATCTAATGTTT
* *
754797 TTAATTCATAGAATTAAGCTTTTGCACCTTTTACGATTTAATCATTTTCACTTAATTAACTATCT
65 TTAATTCATAGAATTAAGATTTTGCACCTTTTACGATTTAATCATTTTCACTTAATCAACTATCT
* *
754862 AAACGTTAAAATTTCATAACCAAATTTTAATATGAAACTAATGATCTCGTAAATATTAAATAATT
130 AAACATTAAAATTTCATAACCAAATTTTAATACGAAACTAATGATCTCGTAAATATTAAATAATT
*
754927 AATATTTATGGTCTAACACATCGACGTGGT
195 AATATTTATGGTCTAACACATCGACATGGT
754957 GGCCTCGAAA
Statistics
Matches: 213, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
223 1 0.00
224 212 1.00
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.40
Consensus pattern (224 bp):
TCTTCCAATGGTATAATTACCATTCAAGTCCCTTAGCTTACCTTTCAATTAGCATCTAATGTTTT
TAATTCATAGAATTAAGATTTTGCACCTTTTACGATTTAATCATTTTCACTTAATCAACTATCTA
AACATTAAAATTTCATAACCAAATTTTAATACGAAACTAATGATCTCGTAAATATTAAATAATTA
ATATTTATGGTCTAACACATCGACATGGT
Found at i:757243 original size:12 final size:12
Alignment explanation
Indices: 757226--757250 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
757216 ATTAAATAAT
757226 TAATAGCATTCA
1 TAATAGCATTCA
757238 TAATAGCATTCA
1 TAATAGCATTCA
757250 T
1 T
757251 CATAATAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (12 bp):
TAATAGCATTCA
Found at i:764095 original size:127 final size:127
Alignment explanation
Indices: 763867--764123 Score: 460
Period size: 127 Copynumber: 2.0 Consensus size: 127
763857 AATTTATAGC
*
763867 TGTAAATGTTTTTATTAAATATTATAGAGTCTTATTAAATGTGAATTGAAGTTTGGTTGGGTAAT
1 TGTAAATGTTTTTATTAAATATTATAGAGTCTTATTAAATGTGAATTGAAGTTTGGTTGGGGAAT
* *
763932 TTTGATAATTAATTGCTTAATTAAGAAAAAAAGAGTAAATTGTAAAAGAGGTCAAAGTTAAT
66 TTTGATAATTAATTGCTTAATTAAGAAAAAAAGAGTAAATTGTAAAAGAGGTAAAACTTAAT
*
763994 TGTAAATGTTTTTATTAAATATTATAGAGTCTTATTAAATGTGAATTGAAGTTTGGTTGGGGATT
1 TGTAAATGTTTTTATTAAATATTATAGAGTCTTATTAAATGTGAATTGAAGTTTGGTTGGGGAAT
* *
764059 TTTGATAATTAATTTCTTAATTAAGAAAAAAGGAGTAAATTGTAAAAGAGGTAAAACTTAAT
66 TTTGATAATTAATTGCTTAATTAAGAAAAAAAGAGTAAATTGTAAAAGAGGTAAAACTTAAT
764121 TGT
1 TGT
764124 TATAGATTAA
Statistics
Matches: 124, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
127 124 1.00
ACGTcount: A:0.39, C:0.02, G:0.18, T:0.40
Consensus pattern (127 bp):
TGTAAATGTTTTTATTAAATATTATAGAGTCTTATTAAATGTGAATTGAAGTTTGGTTGGGGAAT
TTTGATAATTAATTGCTTAATTAAGAAAAAAAGAGTAAATTGTAAAAGAGGTAAAACTTAAT
Found at i:765809 original size:28 final size:28
Alignment explanation
Indices: 765769--765850 Score: 155
Period size: 28 Copynumber: 2.9 Consensus size: 28
765759 GGTAATAGGT
765769 ATGACCTTTGGGTCAACAGGGAGTAAGC
1 ATGACCTTTGGGTCAACAGGGAGTAAGC
*
765797 ATGACCTTTGGGTTAACAGGGAGTAAGC
1 ATGACCTTTGGGTCAACAGGGAGTAAGC
765825 ATGACCTTTGGGTCAACAGGGAGTAA
1 ATGACCTTTGGGTCAACAGGGAGTAA
765851 ATTGGATAAC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 52 1.00
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.23
Consensus pattern (28 bp):
ATGACCTTTGGGTCAACAGGGAGTAAGC
Found at i:767161 original size:13 final size:13
Alignment explanation
Indices: 767143--767167 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
767133 GCTCTCATTT
767143 TTTTTGTTTTTCA
1 TTTTTGTTTTTCA
767156 TTTTTGTTTTTC
1 TTTTTGTTTTTC
767168 TAAGCATCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.04, C:0.08, G:0.08, T:0.80
Consensus pattern (13 bp):
TTTTTGTTTTTCA
Found at i:769405 original size:16 final size:17
Alignment explanation
Indices: 769386--769426 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
769376 AACAATTTGA
*
769386 AATAAATTAAA-AAGTT
1 AATAAATTAAATAAATT
769402 AATAAATTAAATAAATT
1 AATAAATTAAATAAATT
769419 AA-AAATTA
1 AATAAATTA
769427 GAAGATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 17 0.74
17 6 0.26
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (17 bp):
AATAAATTAAATAAATT
Found at i:769416 original size:9 final size:9
Alignment explanation
Indices: 769385--769421 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
769375 TAACAATTTG
769385 AAATAAATT
1 AAATAAATT
*
769394 AAA-AAGTT
1 AAATAAATT
769402 -AATAAATT
1 AAATAAATT
769410 AAATAAATT
1 AAATAAATT
769419 AAA
1 AAA
769422 AATTAGAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
7 2 0.08
8 8 0.33
9 14 0.58
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (9 bp):
AAATAAATT
Found at i:770337 original size:29 final size:29
Alignment explanation
Indices: 770279--770335 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
770269 TTGTTTTGAA
* * *
770279 AATATTTACAAAAATGAACAGCTAAATTT
1 AATATTCACAAAAATGAACAACCAAATTT
*
770308 AATATTCAC-AAAATTAACAACCAAATTT
1 AATATTCACAAAAATGAACAACCAAATTT
770336 TACAGAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.53, C:0.14, G:0.04, T:0.30
Consensus pattern (29 bp):
AATATTCACAAAAATGAACAACCAAATTT
Found at i:774561 original size:30 final size:30
Alignment explanation
Indices: 774509--774566 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
774499 TTCACAATTT
* *
774509 TTGGTTCTGGTAAAACTTGTTCTTGTTTAA
1 TTGGTTCTGGCAAAACTTGTTCTGGTTTAA
*
774539 TTGGTTTTGGCAAAA-TTGGTTCTGGTTT
1 TTGGTTCTGGCAAAACTT-GTTCTGGTTT
774567 TGGTTCTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.17, C:0.09, G:0.24, T:0.50
Consensus pattern (30 bp):
TTGGTTCTGGCAAAACTTGTTCTGGTTTAA
Found at i:780952 original size:26 final size:26
Alignment explanation
Indices: 780910--781023 Score: 94
Period size: 25 Copynumber: 4.5 Consensus size: 26
780900 GTCTTCCAAA
* *
780910 AATTTAGCTCATACGAGCCCAGACAG
1 AATTTAGCTCTTTCGAGCCCAGACAG
*
780936 AGTTTAGCTCTTTCGAGCCCAGACAG
1 AATTTAGCTCTTTCGAGCCCAGACAG
780962 AATATT-GCTCTTAT-GAG-CCAGACAG
1 AAT-TTAGCTCTT-TCGAGCCCAGACAG
* * *
780987 AACATT-GCTCTTACGAG-CCAAACAG
1 AA-TTTAGCTCTTTCGAGCCCAGACAG
* *
781012 AATATCGCTCTT
1 AATTTAGCTCTT
781024 ATGAGGCAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 11
0.79 0.10 0.12
Matches are distributed among these distances:
24 1 0.01
25 36 0.49
26 34 0.46
27 3 0.04
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (26 bp):
AATTTAGCTCTTTCGAGCCCAGACAG
Found at i:780988 original size:25 final size:25
Alignment explanation
Indices: 780928--781028 Score: 116
Period size: 25 Copynumber: 4.0 Consensus size: 25
780918 TCATACGAGC
*
780928 CCAGACAGAGT-TTAGCTCTT-TCGAG
1 CCAGACAGAATATT-GCTCTTAT-GAG
780953 CCCAGACAGAATATTGCTCTTATGAG
1 -CCAGACAGAATATTGCTCTTATGAG
* *
780979 CCAGACAGAACATTGCTCTTACGAG
1 CCAGACAGAATATTGCTCTTATGAG
* *
781004 CCAAACAGAATATCGCTCTTATGAG
1 CCAGACAGAATATTGCTCTTATGAG
781029 GCAAATAGAA
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
25 44 0.67
26 19 0.29
27 3 0.05
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (25 bp):
CCAGACAGAATATTGCTCTTATGAG
Found at i:781033 original size:25 final size:25
Alignment explanation
Indices: 780958--781049 Score: 112
Period size: 25 Copynumber: 3.7 Consensus size: 25
780948 TCGAGCCCAG
* *
780958 ACAGAATATTGCTCTTATGAGCCAG
1 ACAGAATATCGCTCTTATGAGCCAA
* * *
780983 ACAGAACATTGCTCTTACGAGCCAA
1 ACAGAATATCGCTCTTATGAGCCAA
*
781008 ACAGAATATCGCTCTTATGAGGCAA
1 ACAGAATATCGCTCTTATGAGCCAA
* *
781033 ATAGAATATCACTCTTA
1 ACAGAATATCGCTCTTA
781050 CAAGCCAGAT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 58 1.00
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (25 bp):
ACAGAATATCGCTCTTATGAGCCAA
Found at i:781048 original size:50 final size:50
Alignment explanation
Indices: 780943--781056 Score: 129
Period size: 50 Copynumber: 2.3 Consensus size: 50
780933 CAGAGTTTAG
* * * * **
780943 CTCTTTCGAGCCCAGACAGAATATTGCTCTTATGAGCCAGACAGAACATTG
1 CTCTTACGAG-CCAAACAGAATATCGCTCTTATGAGCCAAACAGAACATCA
* * *
780994 CTCTTACGAGCCAAACAGAATATCGCTCTTATGAGGCAAATAGAATATCA
1 CTCTTACGAGCCAAACAGAATATCGCTCTTATGAGCCAAACAGAACATCA
*
781044 CTCTTACAAGCCA
1 CTCTTACGAGCCA
781057 GATAGAGTTC
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
50 44 0.83
51 9 0.17
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (50 bp):
CTCTTACGAGCCAAACAGAATATCGCTCTTATGAGCCAAACAGAACATCA
Found at i:781061 original size:25 final size:25
Alignment explanation
Indices: 780994--781062 Score: 84
Period size: 25 Copynumber: 2.8 Consensus size: 25
780984 CAGAACATTG
* *
780994 CTCTTACGAGCCAAACAGAATATCG
1 CTCTTACGAGCCAAATAGAATATCA
* *
781019 CTCTTATGAGGCAAATAGAATATCA
1 CTCTTACGAGCCAAATAGAATATCA
* *
781044 CTCTTACAAGCCAGATAGA
1 CTCTTACGAGCCAAATAGA
781063 GTTCAACCAG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.23
Consensus pattern (25 bp):
CTCTTACGAGCCAAATAGAATATCA
Found at i:785844 original size:50 final size:48
Alignment explanation
Indices: 785790--785901 Score: 136
Period size: 50 Copynumber: 2.2 Consensus size: 48
785780 AATATTATTT
*
785790 TTACGAGCCAAACAAAA-TATCGTTCTTTCGAGCCAGATAGAATATCGCTC
1 TTACGAGCCAAACAAAATTA-C--TCTTACGAGCCAGATAGAATATCGCTC
* *
785840 TTACGAGCCATAGAGAAACTTACTCTTACGAGCCAGATAGAATATCGCTC
1 TTACGAGCCA-A-ACAAAATTACTCTTACGAGCCAGATAGAATATCGCTC
*
785890 TTATGAGCCAAA
1 TTACGAGCCAAA
785902 TAGAGATTAA
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
48 1 0.02
49 1 0.02
50 45 0.82
51 1 0.02
52 5 0.09
53 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (48 bp):
TTACGAGCCAAACAAAATTACTCTTACGAGCCAGATAGAATATCGCTC
Found at i:785904 original size:25 final size:25
Alignment explanation
Indices: 785790--785905 Score: 117
Period size: 25 Copynumber: 4.6 Consensus size: 25
785780 AATATTATTT
* * *
785790 TTACGAGCCAAACAAAATATCGTTC
1 TTACGAGCCAAATAGAATATCGCTC
* *
785815 TTTCGAGCCAGATAGAATATCGCTC
1 TTACGAGCCAAATAGAATATCGCTC
* * **
785840 TTACGAGCCATAGAGAA-ACTTACTC
1 TTACGAGCCAAATAGAATA-TCGCTC
*
785865 TTACGAGCCAGATAGAATATCGCTC
1 TTACGAGCCAAATAGAATATCGCTC
*
785890 TTATGAGCCAAATAGA
1 TTACGAGCCAAATAGA
785906 GATTAACCAG
Statistics
Matches: 73, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
24 1 0.01
25 71 0.97
26 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.25
Consensus pattern (25 bp):
TTACGAGCCAAATAGAATATCGCTC
Found at i:790771 original size:33 final size:33
Alignment explanation
Indices: 790729--790793 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
790719 TGTGCTAAAT
790729 ATAACTAAATGGGAACAACTTAACCAATAAGTG
1 ATAACTAAATGGGAACAACTTAACCAATAAGTG
790762 ATAACTAAATGGGAACAACTTAACCAATAAGT
1 ATAACTAAATGGGAACAACTTAACCAATAAGT
790794 AGGGAGAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.49, C:0.15, G:0.14, T:0.22
Consensus pattern (33 bp):
ATAACTAAATGGGAACAACTTAACCAATAAGTG
Found at i:803556 original size:18 final size:16
Alignment explanation
Indices: 803517--803559 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
803507 CTTCGGCTGA
*
803517 TTCTTTCTCAGCATCT
1 TTCTTTCTCAACATCT
803533 TT-TTTCTCAACATCTT
1 TTCTTTCTCAACATC-T
803549 CTTCTTTCTCA
1 -TTCTTTCTCA
803560 TTCACATCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 11 0.48
16 3 0.13
17 2 0.09
18 7 0.30
ACGTcount: A:0.14, C:0.30, G:0.02, T:0.53
Consensus pattern (16 bp):
TTCTTTCTCAACATCT
Found at i:805356 original size:16 final size:16
Alignment explanation
Indices: 805318--805360 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
805308 TACTTATTCT
805318 ACAAAAACAAACAAGA
1 ACAAAAACAAACAAGA
** **
805334 AGTAAAACAAACTTGA
1 ACAAAAACAAACAAGA
805350 ACAAAAACAAA
1 ACAAAAACAAA
805361 ATTAAAGTAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.70, C:0.16, G:0.07, T:0.07
Consensus pattern (16 bp):
ACAAAAACAAACAAGA
Found at i:815242 original size:24 final size:24
Alignment explanation
Indices: 815210--815257 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
815200 GACCCATAGG
815210 TTAAAAGATTGTGAATTTAATCTA
1 TTAAAAGATTGTGAATTTAATCTA
815234 TTAAAAGATTGTGAATTTAATCTA
1 TTAAAAGATTGTGAATTTAATCTA
815258 ACTGTAAGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.04, G:0.12, T:0.42
Consensus pattern (24 bp):
TTAAAAGATTGTGAATTTAATCTA
Found at i:815427 original size:22 final size:21
Alignment explanation
Indices: 815399--815449 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
815389 TTTTTATAAA
* *
815399 ATTTTAAAATATTAAATTTTAT
1 ATTTTAAAACACTAAA-TTTAT
815421 ATTTT-AAACACTAAATTTAT
1 ATTTTAAAACACTAAATTTAT
*
815441 ATATTAAAA
1 ATTTTAAAA
815450 ATTGTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 9 0.36
21 11 0.44
22 5 0.20
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTTTAAAACACTAAATTTAT
Found at i:818991 original size:59 final size:59
Alignment explanation
Indices: 818836--819364 Score: 747
Period size: 59 Copynumber: 9.0 Consensus size: 59
818826 TGAGAGTTTT
* * **
818836 GAGGTCGAAAATGGGATTTTTTGAAGTTTAGGGGTAAAATGGTAATTTTTGGAAGGTT-
1 GAGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTTGGAAGGTTC
* **
818894 TAGG-CAAAAATGGGATTTTTGGAAGTTCAAGGGTAAAATGGTAATTTTTGGAAGGTTC
1 GAGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTTGGAAGGTTC
* * *
818952 GAGGTTAAAAATGGGATTTTTGGGAGTTTGGGGGTAAAATGGTAATTTTTGGAAGGTTC
1 GAGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTTGGAAGGTTC
* * * *
819011 GAGGTCAAGAATGGGATTTTTGGAAGTTCGAGGGTAAAATGGTATTTTTTGGAAGGTTT
1 GAGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTTGGAAGGTTC
* *
819070 GTGGTCAAAAATGGGATTTTTGGGAGTTCGGGGGTAAAATGGTAATTTTTGGAAGGTTC
1 GAGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTTGGAAGGTTC
* * * * *
819129 GTGGTTAAAAATGGGATTTTTGGGAGTTTGGGGGTAAAATGGTAATTTTTGGAAGGTTT
1 GAGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTTGGAAGGTTC
* * *
819188 GGGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAGATGGTAATTTTTGGAAGGTTT
1 GAGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTTGGAAGGTTC
* * ***
819247 GGGGTCAAAAATGGGATTTTTGGGAGTTCAAAGGTAAAAATGGTAATTTTTGGAAGGTTC
1 GAGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGT-AAAATGGTAATTTTTGGAAGGTTC
* **
819307 GGGGTCAAAAATGGGATTTTTGGAAGTTTAGGGGTAAAATGGTAATTTTTGGAAGGTT
1 GAGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTTGGAAGGTT
819365 TAGGGACCTC
Statistics
Matches: 426, Mismatches: 42, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
57 49 0.12
58 6 0.01
59 318 0.75
60 53 0.12
ACGTcount: A:0.28, C:0.03, G:0.34, T:0.35
Consensus pattern (59 bp):
GAGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTTGGAAGGTTC
Found at i:819129 original size:177 final size:176
Alignment explanation
Indices: 818836--819364 Score: 830
Period size: 177 Copynumber: 3.0 Consensus size: 176
818826 TGAGAGTTTT
* *
818836 GAGGTCGAAAATGGGATTTTTTGAAGTT-TAGGGGTAAAATGGTAATTTTTGGAAGGTTT-AGG-
1 GAGGTC-AAAATGGGATTTTTGGAAGTTCGA-GGGTAAAATGGTAATTTTTGGAAGGTTTGAGGT
*
818898 CAAAAATGGGATTTTTGGAAGTTCAAGGGTAAAATGGTAATTTTTGGAAGGTTCGAGGTTAAAAA
64 CAAAAATGGGATTTTTGGGAGTTCAAGGGTAAAATGGTAATTTTTGGAAGGTTCGAGGTTAAAAA
818963 TGGGATTTTTGGGAGTTTGGGGGTAAAATGGTAATTTTTGGAAGGTTC
129 TGGGATTTTTGGGAGTTTGGGGGTAAAATGGTAATTTTTGGAAGGTTC
* *
819011 GAGGTCAAGAATGGGATTTTTGGAAGTTCGAGGGTAAAATGGTATTTTTTGGAAGGTTTGTGGTC
1 GAGGTCAA-AATGGGATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTGGAAGGTTTGAGGTC
** *
819076 AAAAATGGGATTTTTGGGAGTTCGGGGGTAAAATGGTAATTTTTGGAAGGTTCGTGGTTAAAAAT
65 AAAAATGGGATTTTTGGGAGTTCAAGGGTAAAATGGTAATTTTTGGAAGGTTCGAGGTTAAAAAT
*
819141 GGGATTTTTGGGAGTTTGGGGGTAAAATGGTAATTTTTGGAAGGTTT
130 GGGATTTTTGGGAGTTTGGGGGTAAAATGGTAATTTTTGGAAGGTTC
* * * *
819188 GGGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAGATGGTAATTTTTGGAAGGTTTGGGGTC
1 GAGGTC-AAAATGGGATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTGGAAGGTTTGAGGTC
* * *
819253 AAAAATGGGATTTTTGGGAGTTCAAAGGTAAAAATGGTAATTTTTGGAAGGTTCGGGGTCAAAAA
65 AAAAATGGGATTTTTGGGAGTTCAAGGGT-AAAATGGTAATTTTTGGAAGGTTCGAGGTTAAAAA
* *
819318 TGGGATTTTTGGAAGTTTAGGGGTAAAATGGTAATTTTTGGAAGGTT
129 TGGGATTTTTGGGAGTTTGGGGGTAAAATGGTAATTTTTGGAAGGTT
819365 TAGGGACCTC
Statistics
Matches: 327, Mismatches: 21, Indels: 9
0.92 0.06 0.03
Matches are distributed among these distances:
174 2 0.01
175 51 0.16
176 3 0.01
177 191 0.58
178 80 0.24
ACGTcount: A:0.28, C:0.03, G:0.34, T:0.35
Consensus pattern (176 bp):
GAGGTCAAAATGGGATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTGGAAGGTTTGAGGTCA
AAAATGGGATTTTTGGGAGTTCAAGGGTAAAATGGTAATTTTTGGAAGGTTCGAGGTTAAAAATG
GGATTTTTGGGAGTTTGGGGGTAAAATGGTAATTTTTGGAAGGTTC
Found at i:820751 original size:35 final size:35
Alignment explanation
Indices: 820705--820775 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
820695 TGGATATGGT
820705 GAAAAACTTATTCTGGTATTGATTTTTAGAATCAA
1 GAAAAACTTATTCTGGTATTGATTTTTAGAATCAA
820740 GAAAAACTTATTCTGGTATTGATTTTTAGAATCAA
1 GAAAAACTTATTCTGGTATTGATTTTTAGAATCAA
820775 G
1 G
820776 GTCAGTACCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.39
Consensus pattern (35 bp):
GAAAAACTTATTCTGGTATTGATTTTTAGAATCAA
Found at i:821235 original size:17 final size:17
Alignment explanation
Indices: 821191--821252 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
821181 CATTTTTTTT
* *
821191 AATAAATTTAAATTTCA
1 AATAAACTTAAATTTAA
** * *
821208 ACCAAATTTAAATTTAG
1 AATAAACTTAAATTTAA
*
821225 AATAAACTTAATTTTAA
1 AATAAACTTAAATTTAA
*
821242 AATAAATTTAA
1 AATAAACTTAA
821253 GCTGATTGGG
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (17 bp):
AATAAACTTAAATTTAA
Found at i:822228 original size:20 final size:21
Alignment explanation
Indices: 822203--822242 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
822193 GAAGTAATAA
822203 TATTATTAAATTAT-CAAAAT
1 TATTATTAAATTATACAAAAT
*
822223 TATTATTTAATTATACAAAA
1 TATTATTAAATTATACAAAA
822243 CTTTTATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (21 bp):
TATTATTAAATTATACAAAAT
Found at i:823353 original size:16 final size:16
Alignment explanation
Indices: 823332--823364 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
823322 CTGGCTCAGA
823332 GTAGACTCAAAAAAGG
1 GTAGACTCAAAAAAGG
*
823348 GTAGACTCAGAAAAGG
1 GTAGACTCAAAAAAGG
823364 G
1 G
823365 CCTACTTCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.12, G:0.30, T:0.12
Consensus pattern (16 bp):
GTAGACTCAAAAAAGG
Found at i:823704 original size:55 final size:55
Alignment explanation
Indices: 823620--823730 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
823610 AGCAAAACAA
823620 CCTCGTTTCTCAGTAGGTGAAAGAGGCTCTCCTCTCGTTCCTTTATTCAAATTCT
1 CCTCGTTTCTCAGTAGGTGAAAGAGGCTCTCCTCTCGTTCCTTTATTCAAATTCT
823675 CCTCGTTTCTCAGTAGGTGAAAGAGGCTCTCCTCTCGTTCCTTTATTCAAATTCT
1 CCTCGTTTCTCAGTAGGTGAAAGAGGCTCTCCTCTCGTTCCTTTATTCAAATTCT
823730 C
1 C
823731 TATTATCTCC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.18, C:0.28, G:0.16, T:0.38
Consensus pattern (55 bp):
CCTCGTTTCTCAGTAGGTGAAAGAGGCTCTCCTCTCGTTCCTTTATTCAAATTCT
Found at i:831462 original size:117 final size:116
Alignment explanation
Indices: 831235--831468 Score: 380
Period size: 117 Copynumber: 2.0 Consensus size: 116
831225 CATCTAATGG
* *
831235 ATGAAGGGAAGTGAAAAGTGGTCCTTCCTTATGGTTGTATTCGATTTGCGATAACCATGCATACC
1 ATGAAAGGAAGTGAAAAGTGGTCCTTCCTTATGGCTGTATTCGATTTGCGATAACCATGCATACC
*
831300 CGCCAACCTGTAGGAATGCGTGTAGGGATTAGCCCATCCTTGTCATTACTC
66 CGCCAACCTGTAAGAATGCGTGTAGGGATTAGCCCATCCTTGTCATTACTC
* **
831351 ATGAAAGGAAGTGAAAAGTGGTCCTTCCTTGTGGCTGTATTCGATTTTTGATAATCCATGCATAC
1 ATGAAAGGAAGTGAAAAGTGGTCCTTCCTTATGGCTGTATTCGATTTGCGATAA-CCATGCATAC
*
831416 CCGTCAA-CTCGTAAGAATGCGTGTAGGGATTAGCCCATCCTTGTCATTACTC
65 CCGCCAACCT-GTAAGAATGCGTGTAGGGATTAGCCCATCCTTGTCATTACTC
831468 A
1 A
831469 CCACAGTGAT
Statistics
Matches: 109, Mismatches: 7, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
116 51 0.47
117 58 0.53
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (116 bp):
ATGAAAGGAAGTGAAAAGTGGTCCTTCCTTATGGCTGTATTCGATTTGCGATAACCATGCATACC
CGCCAACCTGTAAGAATGCGTGTAGGGATTAGCCCATCCTTGTCATTACTC
Found at i:840976 original size:19 final size:19
Alignment explanation
Indices: 840929--840977 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
840919 TTTATTAACA
* *
840929 ATATCTTAAACTTTTAAAT
1 ATATTTTAAACTGTTAAAT
*
840948 ATGCTTTTAAACTGTTAAAT
1 AT-ATTTTAAACTGTTAAAT
840968 ATATTTTAAA
1 ATATTTTAAA
840978 AATATTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.47
Consensus pattern (19 bp):
ATATTTTAAACTGTTAAAT
Found at i:841041 original size:15 final size:14
Alignment explanation
Indices: 841018--841058 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
841008 ATAATTGTAA
841018 TTAACTTTTTAAAAT
1 TTAA-TTTTTAAAAT
*
841033 TTAATTTTTAATAT
1 TTAATTTTTAAAAT
841047 TTATATTTTTAA
1 TTA-ATTTTTAA
841059 CAAGTTGCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (14 bp):
TTAATTTTTAAAAT
Found at i:841657 original size:26 final size:27
Alignment explanation
Indices: 841610--841661 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
841600 TTTAAGATAA
*
841610 TTTTAATTTTAGATTCAAAATATATTTT
1 TTTTAATTTTAAATT-AAAATATATTTT
*
841638 TTTTAATTTTAAATT-TAATATATT
1 TTTTAATTTTAAATTAAAATATATT
841662 AAGTTTAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 8 0.36
28 14 0.64
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (27 bp):
TTTTAATTTTAAATTAAAATATATTTT
Found at i:842085 original size:22 final size:23
Alignment explanation
Indices: 842059--842101 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
842049 TTTATAAAAA
842059 ATAAATATATTTA-AAAATTAAC
1 ATAAATATATTTAGAAAATTAAC
* *
842081 ATAAATTTTTTTAGAAAATTA
1 ATAAATATATTTAGAAAATTA
842102 TCCATGTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
ATAAATATATTTAGAAAATTAAC
Found at i:853911 original size:43 final size:43
Alignment explanation
Indices: 853850--853937 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
853840 AGGACAGACC
853850 AAAATTTATCTTCCTTTGAACTCCTTGTATTGGCCTGATGATT
1 AAAATTTATCTTCCTTTGAACTCCTTGTATTGGCCTGATGATT
853893 AAAATTTATCTTCCTTTGAACTCCTTGTATTGGCCTGATGATT
1 AAAATTTATCTTCCTTTGAACTCCTTGTATTGGCCTGATGATT
853936 AA
1 AA
853938 GGGTGTTTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.43
Consensus pattern (43 bp):
AAAATTTATCTTCCTTTGAACTCCTTGTATTGGCCTGATGATT
Found at i:859080 original size:17 final size:18
Alignment explanation
Indices: 859048--859084 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
859038 AAATTGATCC
*
859048 AAATTTATTTTTAAATTT
1 AAATTTATTCTTAAATTT
859066 AAATTTA-TCTTAAATTT
1 AAATTTATTCTTAAATTT
859083 AA
1 AA
859085 CCCCGAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
AAATTTATTCTTAAATTT
Found at i:859114 original size:30 final size:30
Alignment explanation
Indices: 859080--859172 Score: 125
Period size: 30 Copynumber: 3.1 Consensus size: 30
859070 TTATCTTAAA
*
859080 TTTAACCCCGAAACTTTCAAAAATTCCATT
1 TTTAACCCCGAAACTTTCAAAAATTACATT
*
859110 TTTAATCCCGAAACTTTCAAAAATTACATT
1 TTTAACCCCGAAACTTTCAAAAATTACATT
* *
859140 TTT-ACCCTTGAAACTTTCAAAAAGTATCATT
1 TTTAACCC-CGAAACTTTCAAAAATTA-CATT
859171 TT
1 TT
859173 GCCCCTCAGA
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
29 3 0.05
30 47 0.84
31 6 0.11
ACGTcount: A:0.37, C:0.22, G:0.04, T:0.38
Consensus pattern (30 bp):
TTTAACCCCGAAACTTTCAAAAATTACATT
Found at i:859308 original size:28 final size:28
Alignment explanation
Indices: 859275--859336 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
859265 CTGAACTTTC
* * *
859275 CCAAAATTACCATTTTGCTCTCGAGAAT
1 CCAAAATTACCATTTTACCCCCGAGAAT
* *
859303 CCAAAATTTCCATTTTACCCCCGAGTAT
1 CCAAAATTACCATTTTACCCCCGAGAAT
859331 CCAAAA
1 CCAAAA
859337 AGTCTCATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.29
Consensus pattern (28 bp):
CCAAAATTACCATTTTACCCCCGAGAAT
Found at i:861135 original size:38 final size:38
Alignment explanation
Indices: 861093--861169 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
861083 GTTACAGTGG
861093 AGCAGCCACCTATTGTGTGGTGTGACAACACATCCACT
1 AGCAGCCACCTATTGTGTGGTGTGACAACACATCCACT
*
861131 AGCAGCCACCTGTTGTGTGGTGTGACAACACATCCACT
1 AGCAGCCACCTATTGTGTGGTGTGACAACACATCCACT
861169 A
1 A
861170 TATCAATGGC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (38 bp):
AGCAGCCACCTATTGTGTGGTGTGACAACACATCCACT
Found at i:863063 original size:23 final size:23
Alignment explanation
Indices: 863021--863068 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
863011 TTTAAGGTGT
* *
863021 TTTTATTTTAATTAGTTTTAGGG
1 TTTTATTTTAATTAGGTTTAAGG
863044 TTTT-TTTTAATTAGGGTTTAAGG
1 TTTTATTTTAATTA-GGTTTAAGG
863067 TT
1 TT
863069 AAAAAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.21, C:0.00, G:0.19, T:0.60
Consensus pattern (23 bp):
TTTTATTTTAATTAGGTTTAAGG
Found at i:867011 original size:10 final size:10
Alignment explanation
Indices: 866990--867074 Score: 57
Period size: 10 Copynumber: 9.6 Consensus size: 10
866980 TATTATCAAC
866990 AAAT-TAATT
1 AAATATAATT
*
866999 AAATATTATT
1 AAATATAATT
*
867009 AAAAATAATT
1 AAATATAATT
867019 AAAT-T-A-T
1 AAATATAATT
*
867026 AAAAATAATT
1 AAATATAATT
867036 -AA-ATAATT
1 AAATATAATT
867044 AAAT-T-A-T
1 AAATATAATT
*
867051 AAAAATAATT
1 AAATATAATT
867061 -AA-ATAATT
1 AAATATAATT
867069 AAATAT
1 AAATAT
867075 TTTCTATAAC
Statistics
Matches: 59, Mismatches: 6, Indels: 21
0.69 0.07 0.24
Matches are distributed among these distances:
7 8 0.14
8 16 0.27
9 16 0.27
10 19 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
AAATATAATT
Found at i:867023 original size:25 final size:23
Alignment explanation
Indices: 867011--867072 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 23
867001 ATATTATTAA
867011 AAATAATTAAATTATAAAAATAATT
1 AAATAATTAAA-T-TAAAAATAATT
867036 AAATAATTAAATTATAAAAATAATT
1 AAATAATTAAA-T-TAAAAATAATT
867061 AAATAATTAAAT
1 AAATAATTAAAT
867073 ATTTTCTATA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 1 0.03
25 36 0.97
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
AAATAATTAAATTAAAAATAATT
Found at i:867039 original size:8 final size:8
Alignment explanation
Indices: 867011--867073 Score: 72
Period size: 8 Copynumber: 7.6 Consensus size: 8
867001 ATATTATTAA
867011 AAATAATT
1 AAATAATT
* *
867019 AAATTATAA
1 AAATAAT-T
867028 AAATAATT
1 AAATAATT
867036 AAATAATT
1 AAATAATT
* *
867044 AAATTATAA
1 AAATAAT-T
867053 AAATAATT
1 AAATAATT
867061 AAATAATT
1 AAATAATT
867069 AAATA
1 AAATA
867074 TTTTCTATAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
8 33 0.73
9 12 0.27
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
AAATAATT
Found at i:867059 original size:17 final size:18
Alignment explanation
Indices: 867003--867046 Score: 72
Period size: 17 Copynumber: 2.5 Consensus size: 18
866993 TTAATTAAAT
867003 ATTATTAAAAATAATTAA
1 ATTATTAAAAATAATTAA
867021 ATTA-TAAAAATAATTAA
1 ATTATTAAAAATAATTAA
*
867038 ATAATTAAA
1 ATTATTAAA
867047 TTATAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
ATTATTAAAAATAATTAA
Found at i:867138 original size:21 final size:22
Alignment explanation
Indices: 867082--867150 Score: 79
Period size: 22 Copynumber: 3.1 Consensus size: 22
867072 TATTTTCTAT
867082 AACCATTAATTTAAAATACCTTAA
1 AACC-TTAATTTAAAATACC-TAA
*
867106 ATCCTT-ATTTAAAATACC-AA
1 AACCTTAATTTAAAATACCTAA
*
867126 AACCTTAATTTAAAAAACCCTAA
1 AACCTTAATTTAAAATA-CCTAA
867149 AA
1 AA
867151 ATAAATAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
20 7 0.18
21 9 0.23
22 14 0.36
23 6 0.15
24 3 0.08
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (22 bp):
AACCTTAATTTAAAATACCTAA
Found at i:867235 original size:30 final size:31
Alignment explanation
Indices: 867199--867260 Score: 108
Period size: 30 Copynumber: 2.0 Consensus size: 31
867189 CAAAATAGTA
*
867199 AAATTTAGATATATT-GTTTTGAATTTTTAG
1 AAATTTAGATATATTAGTTTTGAAATTTTAG
867229 AAATTTAGATATATTAGTTTTGAAATTTTAG
1 AAATTTAGATATATTAGTTTTGAAATTTTAG
867260 A
1 A
867261 CTTTAAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 15 0.50
31 15 0.50
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (31 bp):
AAATTTAGATATATTAGTTTTGAAATTTTAG
Found at i:867420 original size:21 final size:21
Alignment explanation
Indices: 867383--867422 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
867373 TTTTAATCCT
*
867383 AAACCCTAATTTAAATTAAGC
1 AAACCCTAAATTAAATTAAGC
867404 AAACCCTAAAATT-AATTAA
1 AAACCCT-AAATTAAATTAA
867423 AACAAAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.53, C:0.17, G:0.03, T:0.28
Consensus pattern (21 bp):
AAACCCTAAATTAAATTAAGC
Found at i:868295 original size:10 final size:9
Alignment explanation
Indices: 868270--868302 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
868260 AAAATTAAAA
868270 TTTTATATT
1 TTTTATATT
868279 TTTTATATT
1 TTTTATATT
868288 TTTATATATT
1 TTT-TATATT
868298 TTTTA
1 TTTTA
868303 AAAATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTATATT
Found at i:868772 original size:7 final size:7
Alignment explanation
Indices: 868760--868792 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
868750 AATTTTATGT
868760 ATATTTA
1 ATATTTA
868767 ATATTTA
1 ATATTTA
868774 ATATTTA
1 ATATTTA
868781 AT-TTTA
1 ATATTTA
*
868787 AAATTT
1 ATATTT
868793 TATTTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
ATATTTA
Found at i:868777 original size:14 final size:13
Alignment explanation
Indices: 868760--868798 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
868750 AATTTTATGT
868760 ATATTTAATATTTA
1 ATATTTAAT-TTTA
868774 ATATTTAATTTTA
1 ATATTTAATTTTA
* *
868787 AAATTTTATTTT
1 ATATTTAATTTT
868799 TTTATTTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 14 0.61
14 9 0.39
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATATTTAATTTTA
Found at i:870072 original size:13 final size:13
Alignment explanation
Indices: 870031--870072 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
870021 ACATAAGTAC
*
870031 TAAATATTTTTAT
1 TAAATATTGTTAT
*
870044 TAAAGTATAGTT-T
1 TAAA-TATTGTTAT
870057 TAAATATTGTTAT
1 TAAATATTGTTAT
870070 TAA
1 TAA
870073 TATCTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
12 6 0.25
13 13 0.54
14 5 0.21
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.52
Consensus pattern (13 bp):
TAAATATTGTTAT
Found at i:870486 original size:21 final size:21
Alignment explanation
Indices: 870461--870503 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
870451 ACTAAAATTG
*
870461 AAATTGATATAATG-TTACAAT
1 AAATT-ATATAATGCTCACAAT
*
870482 AAATTATTTAATGCTCACAAT
1 AAATTATATAATGCTCACAAT
870503 A
1 A
870504 TTTAAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.37
Consensus pattern (21 bp):
AAATTATATAATGCTCACAAT
Found at i:872114 original size:21 final size:21
Alignment explanation
Indices: 872088--872136 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
872078 GAATCTCGAG
872088 CCAAAACTC-TAAACTCTAAAC
1 CCAAAA-TCATAAACTCTAAAC
*
872109 CCAAAATCATAAACTTTAAAC
1 CCAAAATCATAAACTCTAAAC
*
872130 CCCAAAT
1 CCAAAAT
872137 ATTAAGTCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 2 0.08
21 23 0.92
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (21 bp):
CCAAAATCATAAACTCTAAAC
Found at i:876314 original size:59 final size:58
Alignment explanation
Indices: 876248--876358 Score: 170
Period size: 58 Copynumber: 1.9 Consensus size: 58
876238 TTAATATAAT
* *
876248 ATTTGATACTTGAACTTGATATTTTTTTTTTAATTTGGTA-CTTAAATTTTTTTAACTGA
1 ATTTGATACTTGAACTTGACA-TTTTTTTTTAATTTGATATC-TAAATTTTTTTAACTGA
*
876307 ATTTGATATTTGAACTTGACATTTTTTTTTAATTTGATATCTAAATTTTTTT
1 ATTTGATACTTGAACTTGACATTTTTTTTTAATTTGATATCTAAATTTTTTT
876359 GGATCCAATA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
58 28 0.58
59 20 0.42
ACGTcount: A:0.27, C:0.06, G:0.09, T:0.58
Consensus pattern (58 bp):
ATTTGATACTTGAACTTGACATTTTTTTTTAATTTGATATCTAAATTTTTTTAACTGA
Found at i:876373 original size:59 final size:56
Alignment explanation
Indices: 876251--876408 Score: 155
Period size: 54 Copynumber: 2.8 Consensus size: 56
876241 ATATAATATT
* * * *
876251 TGATACTTGAACTTGATATTTTTTTTTTAATTTGGTACTTAAATTTTTTTAACTGAATT
1 TGATA-TTGAACTTGACA-TTTTTTTTTAATTTGATAC-TAAATTTTTTTAACTCAATA
*
876310 TGATATTTGAACTTGACATTTTTTTTTAATTTGATATCTAAATTTTTTTGGA-TCCAATA
1 TGATA-TTGAACTTGACATTTTTTTTTAATTTGATA-CTAAATTTTTTT-AACT-CAATA
*
876369 TG--A-T-AACTTGACATTTTTTTCTAATTTGATACCTAAATTT
1 TGATATTGAACTTGACATTTTTTTTTAATTTGATA-CTAAATTT
876409 ATTAAATCTC
Statistics
Matches: 88, Mismatches: 8, Indels: 11
0.82 0.07 0.10
Matches are distributed among these distances:
54 34 0.39
55 1 0.01
57 1 0.01
58 29 0.33
59 23 0.26
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.53
Consensus pattern (56 bp):
TGATATTGAACTTGACATTTTTTTTTAATTTGATACTAAATTTTTTTAACTCAATA
Found at i:876643 original size:29 final size:31
Alignment explanation
Indices: 876607--876682 Score: 93
Period size: 29 Copynumber: 2.5 Consensus size: 31
876597 GAATCCTAAA
* *
876607 AAGTTTAAATATCAACTTA-AAAAAAA-ATC
1 AAGTTTAAATACCAAATTAGAAAAAAATATC
*
876636 AAGTTTAAATACCAAATTAGAAAAAAATGTC
1 AAGTTTAAATACCAAATTAGAAAAAAATATC
* *
876667 AAGTTTGAGTACCAAA
1 AAGTTTAAATACCAAA
876683 ATTGGACAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 17 0.43
30 7 0.17
31 16 0.40
ACGTcount: A:0.54, C:0.11, G:0.09, T:0.26
Consensus pattern (31 bp):
AAGTTTAAATACCAAATTAGAAAAAAATATC
Found at i:876669 original size:31 final size:29
Alignment explanation
Indices: 876568--876682 Score: 90
Period size: 29 Copynumber: 3.9 Consensus size: 29
876558 ATCCAATTAA
* *
876568 AAAAAAAAATCAAGTTCAAGTACCAAATT
1 AAAAAAAAATCAAGTTTAAATACCAAATT
**** * *
876597 GAATCCTAAA--AAGTTTAAATATCAACTT
1 -AAAAAAAAATCAAGTTTAAATACCAAATT
876625 AAAAAAAAATCAAGTTTAAATACCAAATT
1 AAAAAAAAATCAAGTTTAAATACCAAATT
* * *
876654 AGAAAAAAATGTCAAGTTTGAGTACCAAA
1 A-AAAAAAA-ATCAAGTTTAAATACCAAA
876683 ATTGGACAAA
Statistics
Matches: 64, Mismatches: 17, Indels: 7
0.73 0.19 0.08
Matches are distributed among these distances:
27 5 0.08
28 14 0.22
29 17 0.27
30 12 0.19
31 16 0.25
ACGTcount: A:0.55, C:0.12, G:0.09, T:0.24
Consensus pattern (29 bp):
AAAAAAAAATCAAGTTTAAATACCAAATT
Found at i:876685 original size:32 final size:31
Alignment explanation
Indices: 876562--876697 Score: 93
Period size: 31 Copynumber: 4.5 Consensus size: 31
876552 TTATATATCC
* * *
876562 AATTAAAAAAAAAAATCAAGTTCAAGTACCA
1 AATTAGAAAAAAAAATCAAGTTTAAATACCA
**** *
876593 AATT-GAATCCTAAA--AAGTTTAAATATCA
1 AATTAGAAAAAAAAATCAAGTTTAAATACCA
*
876621 ACTT--AAAAAAAAATCAAGTTTAAATACCA
1 AATTAGAAAAAAAAATCAAGTTTAAATACCA
** * *
876650 AATTAGAAAAAAATGTCAAGTTTGAGTACCAA
1 AATTAGAAAAAAAAATCAAGTTTAAATACC-A
*
876682 AATTGGACAAAAAAAA
1 AATTAGA-AAAAAAAA
876698 AAAAAAAAAG
Statistics
Matches: 77, Mismatches: 22, Indels: 10
0.71 0.20 0.09
Matches are distributed among these distances:
27 5 0.06
28 14 0.18
29 16 0.21
30 5 0.06
31 24 0.31
32 7 0.09
33 6 0.08
ACGTcount: A:0.57, C:0.11, G:0.09, T:0.24
Consensus pattern (31 bp):
AATTAGAAAAAAAAATCAAGTTTAAATACCA
Found at i:882880 original size:6 final size:6
Alignment explanation
Indices: 882869--882893 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
882859 AACACAGAGG
882869 AACAGC AACAGC AACAGC AACAGC A
1 AACAGC AACAGC AACAGC AACAGC A
882894 TTAACAACTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.32, G:0.16, T:0.00
Consensus pattern (6 bp):
AACAGC
Found at i:884343 original size:47 final size:48
Alignment explanation
Indices: 884259--884362 Score: 131
Period size: 47 Copynumber: 2.2 Consensus size: 48
884249 ACGGTGACCA
* * *
884259 GTTCAAGTATAACTACGACTCTTAGTTGATGGTGATTATGCGGTCACGG
1 GTTCAAGTATAACTAC-ACTCTAAGTTGATGGTGATTATGCAGTCACAG
*
884308 GTTCAAGTATAACT-CAC-CTCAAGTTGATTGTGATTATGCAGTCACAG
1 GTTCAAGTATAACTACACTCT-AAGTTGATGGTGATTATGCAGTCACAG
*
884355 GTTTAAGT
1 GTTCAAGT
884363 TTCATGCTAA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
46 2 0.04
47 32 0.65
48 1 0.02
49 14 0.29
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (48 bp):
GTTCAAGTATAACTACACTCTAAGTTGATGGTGATTATGCAGTCACAG
Done.