Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014333.1 Kokia drynarioides strain JFW-HI SEQ_129370, 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: 1084406
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 65 characters in sequence are not A, C, G, or T
File 2 of 3
Found at i:400515 original size:142 final size:144
Alignment explanation
Indices: 400233--400515 Score: 362
Period size: 142 Copynumber: 2.0 Consensus size: 144
400223 TTCTTAAAAT
* *
400233 AAAGGAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTAGTCATTTTAAAGAAAAAATTTAAAT
1 AAAGAAAGTTTAAATTTTTAAAAATAAAAATATGTTTTTAGTCATTTTAAAGAAAAAATTTAAAT
* * * * *
400298 TTCTAAACAAAGTTTTTATTTTTTAACTATTTTGAAATAAAAATTTTGATTTTTAAGAACAGTTG
66 TTCTAAACAAAATTTTGATTTTTTAACTATTTTGAAATAAAAACTTTGATCTTTAAGAACAGTAG
**
400363 TGTTTTTTTTTTTA
131 TGTTGATTTTTTTA
* * *
400377 AAAGAAAGTTTAAATTTTTAAAAGA-AAAAATATTTTTTTAGTCA-TTT-AA-AAAGATTTTAAA
1 AAAGAAAGTTTAAATTTTTAAAA-ATAAAAATATGTTTTTAGTCATTTTAAAGAAAAAATTTAAA
* *
400438 TTTTTAAACAAAATTTTGATTTTTTTAACTATTTTGAAATAAAAGCTTTGATCTTTAA-AA-AGT
65 TTTCTAAACAAAATTTTGA-TTTTTTAACTATTTTGAAATAAAAACTTTGATCTTTAAGAACAGT
400501 AGTGATTAGATTTTT
129 AGTG-TT-GATTTTT
400516 AAAAAAATGA
Statistics
Matches: 121, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
140 6 0.05
141 30 0.25
142 42 0.35
143 3 0.02
144 39 0.32
145 1 0.01
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.46
Consensus pattern (144 bp):
AAAGAAAGTTTAAATTTTTAAAAATAAAAATATGTTTTTAGTCATTTTAAAGAAAAAATTTAAAT
TTCTAAACAAAATTTTGATTTTTTAACTATTTTGAAATAAAAACTTTGATCTTTAAGAACAGTAG
TGTTGATTTTTTTA
Found at i:400614 original size:129 final size:121
Alignment explanation
Indices: 400390--400638 Score: 356
Period size: 129 Copynumber: 2.0 Consensus size: 121
400380 GAAAGTTTAA
* * *
400390 ATTTTTAAAAGAAAAAATATTTTTTTAGTCATTTAAAAAGATTTTAAATTTTTAAACAAAATTTT
1 ATTTTTAAAAAAAAAAATATTTTTTTAGTCATTTAAAAAAAGTTTAAATTTTTAAACAAAATTTT
*
400455 GATTTTTTTAACTATTTTGAAATAAAAGCTTTGATCTTT-AAAAAGTAGTGATTAG
66 GATTTTTTTAACTATTTCGAAATAAAAGCTTTGATCTTTAAAAAAGTAGTGATTAG
*
400510 ATTTTTAAAAAAATGAAAATATGTTTTTTAGTCATTTTAAAGGAAAAAGTTTAAATTTTTAAATA
1 ATTTTTAAAAAAA--AAAATAT-TTTTTTAGTCA-TTT-AA--AAAAAGTTTAAATTTTTAAACA
400575 AAATTTTGATAATTTTTTAACTATTTCGAAATAAAAGCTTTGATCTTTAGAAAAAGTAGTGATT
59 AAATTTTGAT--TTTTTTAACTATTTCGAAATAAAAGCTTTGATCTTTA-AAAAAGTAGTGATT
400639 TTGTTTTAAA
Statistics
Matches: 113, Mismatches: 5, Indels: 11
0.88 0.04 0.09
Matches are distributed among these distances:
120 12 0.11
122 7 0.06
123 11 0.10
124 3 0.03
125 2 0.02
127 29 0.26
129 35 0.31
131 14 0.12
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (121 bp):
ATTTTTAAAAAAAAAAATATTTTTTTAGTCATTTAAAAAAAGTTTAAATTTTTAAACAAAATTTT
GATTTTTTTAACTATTTCGAAATAAAAGCTTTGATCTTTAAAAAAGTAGTGATTAG
Found at i:401215 original size:15 final size:16
Alignment explanation
Indices: 401197--401238 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
401187 TTTATTTATT
*
401197 TTTATTTT-GTCTCTA
1 TTTATTTTCATCTCTA
*
401212 TTTATTTTCATGTCTA
1 TTTATTTTCATCTCTA
401228 TTTATTTTCAT
1 TTTATTTTCAT
401239 GTTTTTTTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.17, C:0.12, G:0.05, T:0.67
Consensus pattern (16 bp):
TTTATTTTCATCTCTA
Found at i:401247 original size:16 final size:16
Alignment explanation
Indices: 401208--401240 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
401198 TTATTTTGTC
401208 TCTATTTATTTTCATG
1 TCTATTTATTTTCATG
401224 TCTATTTATTTTCATG
1 TCTATTTATTTTCATG
401240 T
1 T
401241 TTTTTTACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (16 bp):
TCTATTTATTTTCATG
Found at i:401898 original size:20 final size:21
Alignment explanation
Indices: 401860--401898 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
401850 TAGGATTTTG
*
401860 ATAAATTTAAACGTTAGATCA
1 ATAAATTTAAACGTAAGATCA
*
401881 ATAATTTTAAA-GTAAGAT
1 ATAAATTTAAACGTAAGAT
401899 AAATCATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (21 bp):
ATAAATTTAAACGTAAGATCA
Found at i:407362 original size:24 final size:24
Alignment explanation
Indices: 407317--407363 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
407307 GATCATGGAA
**
407317 AAAGTTTTGATTTTTTTTAAAAAG
1 AAAGTTTTGATTTTTTAAAAAAAG
407341 AAAGTTTTGATTTTTTAAAAAAA
1 AAAGTTTTGATTTTTTAAAAAAA
407364 AATTGTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.47
Consensus pattern (24 bp):
AAAGTTTTGATTTTTTAAAAAAAG
Found at i:407372 original size:24 final size:23
Alignment explanation
Indices: 407315--407365 Score: 77
Period size: 22 Copynumber: 2.2 Consensus size: 23
407305 TTGATCATGG
407315 AAAAAGTTTTGATTTTTTTTAAAA
1 AAAAAGTTTTGA-TTTTTTTAAAA
*
407339 AGAAAGTTTTGA-TTTTTTAAAA
1 AAAAAGTTTTGATTTTTTTAAAA
407361 AAAAA
1 AAAAA
407366 TTGTTTTTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 14 0.56
24 11 0.44
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (23 bp):
AAAAAGTTTTGATTTTTTTAAAA
Found at i:407896 original size:46 final size:45
Alignment explanation
Indices: 407846--407932 Score: 104
Period size: 46 Copynumber: 1.9 Consensus size: 45
407836 AAAATTTTAT
*
407846 TTTTTAACTATTAAAATAAAA-TTTAAATTTTTAAGAAAAATAGTGA
1 TTTTTAACTATTAAAAAAAAAGTTTAAA-TTTTAA-AAAAATAGTGA
*** *
407892 TTTTTTTTTTTTAAAAAAAAAGTTTAAATTTTAAAAAAATA
1 TTTTTAACTATTAAAAAAAAAGTTTAAATTTTAAAAAAATA
407933 AAAATATGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
45 7 0.20
46 22 0.63
47 6 0.17
ACGTcount: A:0.49, C:0.01, G:0.05, T:0.45
Consensus pattern (45 bp):
TTTTTAACTATTAAAAAAAAAGTTTAAATTTTAAAAAAATAGTGA
Found at i:407945 original size:46 final size:46
Alignment explanation
Indices: 407856--407946 Score: 105
Period size: 46 Copynumber: 2.0 Consensus size: 46
407846 TTTTTAACTA
* *** *
407856 TTAAAATAAAATTTAAATTTTTAAGAAAAATAGTGATTTTTTTTTT
1 TTAAAAAAAAATTTAAATTTTTAAGAAAAATAAAAATTGTTTTTTT
407902 TTAAAAAAAAAGTTTAAA-TTTTAA-AAAAATAAAAATATGTTTTTT
1 TTAAAAAAAAA-TTTAAATTTTTAAGAAAAATAAAAAT-TGTTTTTT
407947 AGTCATTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
45 9 0.24
46 23 0.61
47 6 0.16
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.45
Consensus pattern (46 bp):
TTAAAAAAAAATTTAAATTTTTAAGAAAAATAAAAATTGTTTTTTT
Found at i:407945 original size:47 final size:46
Alignment explanation
Indices: 407856--407946 Score: 105
Period size: 45 Copynumber: 2.0 Consensus size: 46
407846 TTTTTAACTA
* ***
407856 TTAAAATAAAATTTAAATTTTTAAGAAAAATAGTGATTTTTTTTTT
1 TTAAAAAAAAATTTAAATTTTTAAGAAAAATAAAAATTTTTTTTTT
* *
407902 TTAAAAAAAAAGTTTAAA-TTTTAA-AAAAATAAAAATATGTTTTTT
1 TTAAAAAAAAA-TTTAAATTTTTAAGAAAAATAAAAATTTTTTTTTT
407947 AGTCATTTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
45 16 0.42
46 16 0.42
47 6 0.16
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.45
Consensus pattern (46 bp):
TTAAAAAAAAATTTAAATTTTTAAGAAAAATAAAAATTTTTTTTTT
Found at i:407981 original size:141 final size:144
Alignment explanation
Indices: 407387--408038 Score: 612
Period size: 141 Copynumber: 4.6 Consensus size: 144
407377 AATTTTAAAG
* * * *
407387 AAAAAAGTTAAAATTTTTAGATAAAATTTTGATTTTTTAACTATTTCGACATAAAAGTTTTAATT
1 AAAAAAGTTTAAATTTTTAAACAAAATTTTGATTTTTTAACTATTTCGAAATAAAAGTTTTAATT
* ** **
407452 TTTAAGAAAAATAGTTATTTTTTAAAAAAAAAAAGAAAGTTTAGATTTTAAAAAATAAAAAATAT
66 TTTAAGAAAAATAGTGATTTTTTTTATTAAAAAAGAAAGTTTAGATTTTAAAAAATAAAAAATAT
*
407517 TTTTTAGTCA----
131 TTTTTAATCATTTT
*** * * *
407527 AAAATTTTTTTAAATTTTTAAACAAAGTTTTGATTTTTTAACTATTTCGAAATAAAAATTTTGAT
1 AAAA-AAGTTTAAATTTTTAAACAAAATTTTGATTTTTTAACTATTTCGAAATAAAAGTTTTAAT
* * *
407592 TTTTAAGAAAAGTGGTGATTTTTTTT-TTAAAAAAGGAAAGTTTAGATTTTTAAAAATAAAAATA
65 TTTTAAGAAAAATAGTGATTTTTTTTATTAAAAAA-GAAAGTTTAGATTTTAAAAAATAAAAA-A
407656 TATTTTTTAATCATTTT
128 TATTTTTTAATCATTTT
* * *
407673 AAAGAAAAAGTTTAAAATTTTAAACAAAATTTTGATTTTTTAACTA-TT-----TAAAATTTTTT
1 --A-AAAAAGTTTAAATTTTTAAACAAAATTTTGATTTTTTAACTATTTCGAAATAAAAGTTTTA
* * * * **
407732 ATTTCTAAAAAAAATAGTGA---GTTTTATTAAAAAATAAAGTTTAGATTTTTTAAAATAAAAAA
63 ATTTTTAAGAAAAATAGTGATTTTTTTTATTAAAAAAGAAAGTTTAGATTTTAAAAAATAAAAAA
407794 T-TATTTTTAATCATTTT
128 TAT-TTTTTAATCATTTT
* * * * *
407811 AAAGAAAATTTTTAAATTTTTCAATAAAATTTT-ATTTTTTAACTA-TT-AAAATAAAA-TTTAA
1 -AA-AAAA-GTTTAAATTTTTAAACAAAATTTTGATTTTTTAACTATTTCGAAATAAAAGTTTTA
* *
407872 ATTTTTAAGAAAAATAGTGATTTTTTTTTTTTAAAAAA-AAAGTTTAAATTTTAAAAAAATAAAA
63 ATTTTTAAGAAAAATAGTGA-TTTTTTTTATTAAAAAAGAAAGTTTAGATTTT-AAAAAATAAAA
* *
407936 ATATGTTTTTTAGTCATTTT
126 A-ATATTTTTTAATCATTTT
** * * * * *
407956 -AAAAAGTTTAAATTTAAAAAAAAAATTAT--TTTTTTAAGTATTTCGAAATAAAAGCTTTAATA
1 AAAAAAGTTTAAATTTTTAAACAAAATTTTGATTTTTTAACTATTTCGAAATAAAAGTTTTAATT
**
408018 TTTAAGAAATGTAGTGATTTT
66 TTTAAGAAAAATAGTGATTTT
408039 GTTAAAAAGA
Statistics
Matches: 424, Mismatches: 60, Indels: 54
0.79 0.11 0.10
Matches are distributed among these distances:
136 1 0.00
137 21 0.05
138 36 0.08
139 29 0.07
140 49 0.12
141 122 0.29
142 54 0.13
143 34 0.08
144 22 0.05
145 15 0.04
146 1 0.00
147 2 0.00
148 35 0.08
149 3 0.01
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.45
Consensus pattern (144 bp):
AAAAAAGTTTAAATTTTTAAACAAAATTTTGATTTTTTAACTATTTCGAAATAAAAGTTTTAATT
TTTAAGAAAAATAGTGATTTTTTTTATTAAAAAAGAAAGTTTAGATTTTAAAAAATAAAAAATAT
TTTTTAATCATTTT
Found at i:408761 original size:3 final size:3
Alignment explanation
Indices: 408753--408778 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
408743 GAATGAGGTG
408753 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
408779 GCATAATATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:420432 original size:37 final size:37
Alignment explanation
Indices: 420386--420462 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 37
420376 ATTTTCGGAA
* * *
420386 TGCACCCAAGATTGTCGCTGCAT-AGACATTCTTCAAT
1 TGCACCCAAGACTATCACTGCATAAG-CATTCTTCAAT
* *
420423 TGCATCCAAGACTATCACTGCATAAGTATTCTTCAAT
1 TGCACCCAAGACTATCACTGCATAAGCATTCTTCAAT
420460 TGC
1 TGC
420463 TCCTAGGAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
37 32 0.94
38 2 0.06
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (37 bp):
TGCACCCAAGACTATCACTGCATAAGCATTCTTCAAT
Found at i:423014 original size:122 final size:123
Alignment explanation
Indices: 422795--423050 Score: 408
Period size: 122 Copynumber: 2.1 Consensus size: 123
422785 GTTATCTTTT
* * * *
422795 CTTTTATTTTAATATCTCATATTAAAATGAAATATACATCTTTAGAGAAATATATGGAAGGTTTA
1 CTTTTA-TATAATATCCCATATTAAAAGGAAATATACA-CTTTAAAGAAATATATGGAAGGTTTA
* *
422860 TTAAAACATTATATCCTTTCCAAAAGGATATTATCTTCCATG-TTTTAATATTCAATTTC
64 TTAAAACATTATATCCTTTCCAAAAGGATATTAGCTTCCATGTTTTTAATACTCAATTTC
*
422919 CTTTTATATAATATCCCATATTTAAAAGGAAATATTC-CTTTAAAGAAATATATGGAAGGTTTAT
1 CTTTTATATAATATCCCATA-TTAAAAGGAAATATACACTTTAAAGAAATATATGGAAGGTTTAT
422983 TAAAACATTATATCCTTTCCAAAAGGATATTAGCTTCCATGTTTTTAATACTCAATTTC
65 TAAAACATTATATCCTTTCCAAAAGGATATTAGCTTCCATGTTTTTAATACTCAATTTC
423042 CTTTTATAT
1 CTTTTATAT
423051 GTATACAACA
Statistics
Matches: 123, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
122 66 0.54
123 37 0.30
124 20 0.16
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (123 bp):
CTTTTATATAATATCCCATATTAAAAGGAAATATACACTTTAAAGAAATATATGGAAGGTTTATT
AAAACATTATATCCTTTCCAAAAGGATATTAGCTTCCATGTTTTTAATACTCAATTTC
Found at i:429885 original size:123 final size:125
Alignment explanation
Indices: 429646--429905 Score: 377
Period size: 123 Copynumber: 2.1 Consensus size: 125
429636 TTTTGTTATC
* * *
429646 TTTCTTTTTATTTAATATATCATATTAAAATGGAAACATATATCTTTAGAGAAATATATGAAAGG
1 TTTCTTTTTATATAATATATCATATTAAAAAGGAAACATATATCTTTAAAGAAATATATGAAAGG
* * *
429711 TTTATTAAAATATTATATCCTTTCCAAAAAGGATATTATCTTCCATGTTTTAATATTCAG
66 TTTATTAAAACATTATATCCTTTCCAAAAAGGATATTAACTTCCATGTTTTAATATTCAA
* *
429771 TTTCCTTTTATATAATATCTCATATTAAAAAGG-AA-ATAT-TCCTTTAAAGAAATATAT-AGAA
1 TTTCTTTTTATATAATATATCATATTAAAAAGGAAACATATAT-CTTTAAAGAAATATATGA-AA
*
429832 GGTTTATTAAAACATTATATCCTTTCC-AGAAGGATATTAACTTCCATGTTTTTAATATTCAA
64 GGTTTATTAAAACATTATATCCTTTCCAAAAAGGATATTAACTTCCATG-TTTTAATATTCAA
429894 TTTCTTTTTATA
1 TTTCTTTTTATA
429906 CGTACAACAA
Statistics
Matches: 122, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
122 21 0.17
123 70 0.57
124 2 0.02
125 29 0.24
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (125 bp):
TTTCTTTTTATATAATATATCATATTAAAAAGGAAACATATATCTTTAAAGAAATATATGAAAGG
TTTATTAAAACATTATATCCTTTCCAAAAAGGATATTAACTTCCATGTTTTAATATTCAA
Found at i:436007 original size:16 final size:16
Alignment explanation
Indices: 435988--436044 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 16
435978 AAATGTGAGT
435988 AAAATAAAATATTTAA
1 AAAATAAAATATTTAA
* * *
436004 AAAACAAATTATGTAA
1 AAAATAAAATATTTAA
* * * *
436020 TAACTAAATTAATTAA
1 AAAATAAAATATTTAA
436036 AAAATAAAA
1 AAAATAAAA
436045 CAAAAACAAT
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.28
Consensus pattern (16 bp):
AAAATAAAATATTTAA
Found at i:438161 original size:16 final size:16
Alignment explanation
Indices: 438142--438198 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 16
438132 ACACAATGGT
438142 AAAATAAAATATTTAA
1 AAAATAAAATATTTAA
* * *
438158 AAAACAAATTATGTAA
1 AAAATAAAATATTTAA
* * * *
438174 TAACTAAATTAATTAA
1 AAAATAAAATATTTAA
438190 AAAATAAAA
1 AAAATAAAA
438199 CTAAAATTAT
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.28
Consensus pattern (16 bp):
AAAATAAAATATTTAA
Found at i:438236 original size:26 final size:25
Alignment explanation
Indices: 438179--438236 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 25
438169 TGTAATAACT
*
438179 AAATTAATTAAAAAATAAAACTAAA
1 AAATTAATTAAAAAATAAAACCAAA
*
438204 ATTATTAATT-AAAAATAATAATCCAAA
1 A-AATTAATTAAAAAATAA-AA-CCAAA
438231 AAATTA
1 AAATTA
438237 TTCAGCGTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
25 9 0.33
26 13 0.48
27 5 0.19
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (25 bp):
AAATTAATTAAAAAATAAAACCAAA
Found at i:449542 original size:25 final size:25
Alignment explanation
Indices: 449479--449529 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
449469 TCCAATTGTA
449479 ACTACTTAAGAAAAACTTGTGCATT
1 ACTACTTAAGAAAAACTTGTGCATT
449504 ACTACTTAAGAAAAACTTGTGCATT
1 ACTACTTAAGAAAAACTTGTGCATT
449529 A
1 A
449530 TCATTAGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (25 bp):
ACTACTTAAGAAAAACTTGTGCATT
Found at i:458641 original size:95 final size:95
Alignment explanation
Indices: 458472--458662 Score: 319
Period size: 95 Copynumber: 2.0 Consensus size: 95
458462 GAAGTGAAAT
458472 AGATGAGTCTGAAGTAATATTCCAAATATAAGTACCCGATAAGCAAGAGTATATGCATTAGTGAT
1 AGATGAGTCTGAAGTAATATTCCAAATATAAGTACCCGATAAGCAAGAGTATATGCATTAGTGAT
458537 CTTTATCTTCTCTAATTCCTCTATAATCAA
66 CTTTATCTTCTCTAATTCCTCTATAATCAA
* * * * *
458567 AGATTAGTCTGGAGTAATATTCCAAATATAAGTACCTGATAAGCAAGGGTGTATGCATTAGTGAT
1 AGATGAGTCTGAAGTAATATTCCAAATATAAGTACCCGATAAGCAAGAGTATATGCATTAGTGAT
* *
458632 CTTTCTCTTCTCTAATTCCTCTATTATCAA
66 CTTTATCTTCTCTAATTCCTCTATAATCAA
458662 A
1 A
458663 TCCACACATT
Statistics
Matches: 89, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
95 89 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.35
Consensus pattern (95 bp):
AGATGAGTCTGAAGTAATATTCCAAATATAAGTACCCGATAAGCAAGAGTATATGCATTAGTGAT
CTTTATCTTCTCTAATTCCTCTATAATCAA
Found at i:464948 original size:13 final size:13
Alignment explanation
Indices: 464930--464975 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
464920 ACAAATTATT
464930 TATAAATAATTGA
1 TATAAATAATTGA
*
464943 TATAAATAATTAA
1 TATAAATAATTGA
*
464956 TA-AAAT-TTTGA
1 TATAAATAATTGA
464967 T-TAAATAAT
1 TATAAATAAT
464976 AAAGTATAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
11 8 0.30
12 5 0.19
13 14 0.52
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (13 bp):
TATAAATAATTGA
Found at i:465587 original size:32 final size:32
Alignment explanation
Indices: 465542--465609 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
465532 TGTGTATAAC
465542 GTTA-GCCAATCTATGGCATCCACACAAGGGT
1 GTTACGCCAATCTATGGCATCCACACAAGGGT
465573 GTTACGCCAATCTATGGCATCCACACAAGGGT
1 GTTACGCCAATCTATGGCATCCACACAAGGGT
465605 GTTAC
1 GTTAC
465610 AATTACAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 4 0.11
32 32 0.89
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (32 bp):
GTTACGCCAATCTATGGCATCCACACAAGGGT
Found at i:471814 original size:21 final size:22
Alignment explanation
Indices: 471790--471842 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
471780 CTTGTTGACC
*
471790 GACTCGTTGACTA-GACCCATT
1 GACTCGTTGACTATGAACCATT
*
471811 GACT-GTTGACTATTAACCATT
1 GACTCGTTGACTATGAACCATT
471832 GAC-CGTTGACT
1 GACTCGTTGACT
471843 TTTTCAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 8 0.29
21 20 0.71
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (22 bp):
GACTCGTTGACTATGAACCATT
Found at i:475950 original size:13 final size:13
Alignment explanation
Indices: 475932--475965 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
475922 TCTCGTTTCG
475932 AAACTAAAAATAA
1 AAACTAAAAATAA
**
475945 AAACTAAACTTAA
1 AAACTAAAAATAA
475958 AAACTAAA
1 AAACTAAA
475966 GTCTAATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.18
Consensus pattern (13 bp):
AAACTAAAAATAA
Found at i:480137 original size:20 final size:20
Alignment explanation
Indices: 480109--480150 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
480099 CCGTTGAACA
* *
480109 ACCCGTTAACCGACCCATTG
1 ACCCATTAACCGAACCATTG
480129 ACCCATTAACCGAACCATTG
1 ACCCATTAACCGAACCATTG
480149 AC
1 AC
480151 TTAACCCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.31, C:0.38, G:0.12, T:0.19
Consensus pattern (20 bp):
ACCCATTAACCGAACCATTG
Found at i:481602 original size:21 final size:24
Alignment explanation
Indices: 481560--481602 Score: 65
Period size: 21 Copynumber: 1.9 Consensus size: 24
481550 GGATAATATG
481560 TTTTGATATAATAAATTAAAGTGT
1 TTTTGATATAATAAATTAAAGTGT
481584 TTTTGA-ATAA-AAA-TAAAGT
1 TTTTGATATAATAAATTAAAGT
481603 TAATCAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 3 0.16
23 4 0.21
24 6 0.32
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.42
Consensus pattern (24 bp):
TTTTGATATAATAAATTAAAGTGT
Found at i:482603 original size:16 final size:16
Alignment explanation
Indices: 482564--482606 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
482554 TTAGATTTGA
482564 TGGTTTTATTTGGCTT
1 TGGTTTTATTTGGCTT
*
482580 TAGGTTTTGTTT-GCTAT
1 T-GGTTTTATTTGGCT-T
482597 TGGTTTTATT
1 TGGTTTTATT
482607 GGGAACAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.09, C:0.05, G:0.23, T:0.63
Consensus pattern (16 bp):
TGGTTTTATTTGGCTT
Found at i:500279 original size:80 final size:80
Alignment explanation
Indices: 500145--500295 Score: 230
Period size: 80 Copynumber: 1.9 Consensus size: 80
500135 AGAAAAATTA
* * * * *
500145 TTGGTTAATCCAACTAGAGTTGGGCTCACTTATTGCGGTTTATCCGCTAGGCACTAGGTGCCATG
1 TTGGTTAATCCAACTAGAGCTGGGCTCACATATCGCGGTATATCCGCTAAGCACTAGGTGCCATG
*
500210 AGTTGATGGACTTTG
66 AATTGATGGACTTTG
* *
500225 TTGGTTAATCGAACTAGAGCTGGGCTCACATATCGCGGTATATTCGCTAAGCACTAGGTGCCATG
1 TTGGTTAATCCAACTAGAGCTGGGCTCACATATCGCGGTATATCCGCTAAGCACTAGGTGCCATG
500290 AATTGA
66 AATTGA
500296 CGGGAAACGA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 63 1.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.31
Consensus pattern (80 bp):
TTGGTTAATCCAACTAGAGCTGGGCTCACATATCGCGGTATATCCGCTAAGCACTAGGTGCCATG
AATTGATGGACTTTG
Found at i:502727 original size:56 final size:56
Alignment explanation
Indices: 502641--502767 Score: 200
Period size: 56 Copynumber: 2.3 Consensus size: 56
502631 TAAGCTACAG
* *
502641 GAGACATATGGGCTATGCCCACGGTCGTGTGCCAAACTATGTGTATATACTGACTT
1 GAGACATACGGGCTATGCCCACGGTCGTGTGCCAAACCATGTGTATATACTGACTT
* *
502697 GAGACATACGGGCTATGCCCACGGTCGTGTGCCAAACCGTGTGTATATATTGACTT
1 GAGACATACGGGCTATGCCCACGGTCGTGTGCCAAACCATGTGTATATACTGACTT
* *
502753 GAGCCACACGGGCTA
1 GAGACATACGGGCTA
502768 GGCACATGGG
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 65 1.00
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (56 bp):
GAGACATACGGGCTATGCCCACGGTCGTGTGCCAAACCATGTGTATATACTGACTT
Found at i:503952 original size:56 final size:56
Alignment explanation
Indices: 503872--503977 Score: 153
Period size: 56 Copynumber: 1.9 Consensus size: 56
503862 CGAGCTACAA
*
503872 CCACAACCGTGTGCAAAACTGTGTGTATATACTGACTTAAGAA-ACACGGGCTATGC
1 CCACAACCGTGTGCAAAACTGTGTGTATATACTGACCTAA-AACACACGGGCTATGC
* *
503928 CCACGACCGTGTGCCAAA-TCGTGTGTATATACTGACCTAAAACACACGGG
1 CCACAACCGTGTGCAAAACT-GTGTGTATATACTGACCTAAAACACACGGG
503978 TTGGGCACAC
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
55 3 0.07
56 42 0.93
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (56 bp):
CCACAACCGTGTGCAAAACTGTGTGTATATACTGACCTAAAACACACGGGCTATGC
Found at i:504424 original size:16 final size:17
Alignment explanation
Indices: 504403--504437 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
504393 TAGTACTGTC
504403 AATGCAA-TAAGTTGTT
1 AATGCAAGTAAGTTGTT
504419 AATGCAAGTTAAGTTGTT
1 AATGCAAG-TAAGTTGTT
504437 A
1 A
504438 GAGCAACAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
18 10 0.59
ACGTcount: A:0.37, C:0.06, G:0.20, T:0.37
Consensus pattern (17 bp):
AATGCAAGTAAGTTGTT
Found at i:510119 original size:39 final size:39
Alignment explanation
Indices: 510065--510277 Score: 212
Period size: 39 Copynumber: 5.5 Consensus size: 39
510055 GAATTGGCAA
* *
510065 TGACACTGTAAACACTACAATGCCATACTGAACTAGCAG
1 TGACACTGTAAACACTACAATGCTATACTAAACTAGCAG
* * *
510104 TGACACTGTAAACACTGCAATGCGATACTAAACTAACAG
1 TGACACTGTAAACACTACAATGCTATACTAAACTAGCAG
* * * * * *
510143 TGATACTATAAGCACTGCAATGCTATACTGAACTGGCAG
1 TGACACTGTAAACACTACAATGCTATACTAAACTAGCAG
* * *
510182 TGACACTGTAAACACTACAAT-ATAATACTAAACTAACGG
1 TGACACTGTAAACACTACAATGCT-ATACTAAACTAGCAG
* *** * * * *
510221 TGACACTGTACACACCGTAACGCTATACTAAGCTGGTAG
1 TGACACTGTAAACACTACAATGCTATACTAAACTAGCAG
510260 TGACACTGTAAACACTAC
1 TGACACTGTAAACACTAC
510278 CAGATTGTTA
Statistics
Matches: 137, Mismatches: 35, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
38 1 0.01
39 135 0.99
40 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.23
Consensus pattern (39 bp):
TGACACTGTAAACACTACAATGCTATACTAAACTAGCAG
Found at i:510211 original size:78 final size:78
Alignment explanation
Indices: 510065--510277 Score: 250
Period size: 78 Copynumber: 2.7 Consensus size: 78
510055 GAATTGGCAA
* * * * * * * *
510065 TGACACTGTAAACACTACAATGCCATACTGAACTAGCAGTGACACTGTAAACACTGCAATGCGAT
1 TGACACTATACACACTGCAATGCTATACTGAACTGGCAGTGACACTGTAAACACTACAATACAAT
510130 ACTAAACTAACAG
66 ACTAAACTAACAG
* *
510143 TGATACTATA-AGCACTGCAATGCTATACTGAACTGGCAGTGACACTGTAAACACTACAATATAA
1 TGACACTATACA-CACTGCAATGCTATACTGAACTGGCAGTGACACTGTAAACACTACAATACAA
*
510207 TACTAAACTAACGG
65 TACTAAACTAACAG
* * * * *
510221 TGACACTGTACACACCGTAACGCTATACT-AAGCTGGTAGTGACACTGTAAACACTAC
1 TGACACTATACACACTGCAATGCTATACTGAA-CTGGCAGTGACACTGTAAACACTAC
510278 CAGATTGTTA
Statistics
Matches: 116, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
77 3 0.03
78 112 0.97
79 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.23
Consensus pattern (78 bp):
TGACACTATACACACTGCAATGCTATACTGAACTGGCAGTGACACTGTAAACACTACAATACAAT
ACTAAACTAACAG
Found at i:523886 original size:38 final size:38
Alignment explanation
Indices: 523757--524059 Score: 333
Period size: 39 Copynumber: 7.9 Consensus size: 38
523747 CATTGAAAGT
* * * * *
523757 ATACTGAACTGGCAGTGACATTGCAAATATTGCAATGTC
1 ATACTGAACTGGCAGTGACACTGTAAACACTAC-ATGTC
* *
523796 ATACTGAATTGGCAGTGATACTGTAAACACTACAATGTC
1 ATACTGAACTGGCAGTGACACTGTAAACACTAC-ATGTC
* *
523835 ATACTGAATTGGCAGTGACACTGTAAACACTGCATGTC
1 ATACTGAACTGGCAGTGACACTGTAAACACTACATGTC
*
523873 ATACTGAACTGGCAGTGACACTGTAAACACTACATGTT
1 ATACTGAACTGGCAGTGACACTGTAAACACTACATGTC
*
523911 ATACTGAACTGGCAATGACACTGTAAACACTACATG-C
1 ATACTGAACTGGCAGTGACACTGTAAACACTACATGTC
* * *
523948 TATACTGAACTGGCAGTGACACTGTAAACACTATATTATA
1 -ATACTGAACTGGCAGTGACACTGTAAACACTACA-TGTC
* ** *
523988 ATACTAAACTAACGGTGACACTGTAAACAAC-ACAATG-C
1 ATACTGAACTGGCAGTGACACTGTAAAC-ACTAC-ATGTC
* * *
524026 TATATTGAGCTGGTAGTGACACTGTAAACACTAC
1 -ATACTGAACTGGCAGTGACACTGTAAACACTAC
524060 CAGGTTGTTA
Statistics
Matches: 225, Mismatches: 32, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
38 109 0.48
39 113 0.50
40 3 0.01
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (38 bp):
ATACTGAACTGGCAGTGACACTGTAAACACTACATGTC
Found at i:524056 original size:78 final size:76
Alignment explanation
Indices: 523796--524059 Score: 291
Period size: 76 Copynumber: 3.4 Consensus size: 76
523786 TTGCAATGTC
* * * * * ** *
523796 ATACTGAATTGGCAGTGATACTGTAAACACTACAATGTCATACTGAATTGGCAGTGACACTGTAA
1 ATACTGAACTGGCAGTGACACTGTAAACACTAC-ATGTTATACTAAACTAACAATGACACTGTAA
*
523861 ACACTGCATG-T
65 ACACTACATGCT
* **
523872 CATACTGAACTGGCAGTGACACTGTAAACACTACATGTTATACTGAACTGGCAATGACACTGTAA
1 -ATACTGAACTGGCAGTGACACTGTAAACACTACATGTTATACTAAACTAACAATGACACTGTAA
523937 ACACTACATGCT
65 ACACTACATGCT
* **
523949 ATACTGAACTGGCAGTGACACTGTAAACACTATAT-TATAATACTAAACTAACGGTGACACTGTA
1 ATACTGAACTGGCAGTGACACTGTAAACACTACATGT-T-ATACTAAACTAACAATGACACTGTA
524013 AACAAC-ACAATGCT
64 AAC-ACTAC-ATGCT
* * *
524027 ATATTGAGCTGGTAGTGACACTGTAAACACTAC
1 ATACTGAACTGGCAGTGACACTGTAAACACTAC
524060 CAGGTTGTTA
Statistics
Matches: 166, Mismatches: 16, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
75 1 0.01
76 72 0.43
77 57 0.34
78 36 0.22
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.26
Consensus pattern (76 bp):
ATACTGAACTGGCAGTGACACTGTAAACACTACATGTTATACTAAACTAACAATGACACTGTAAA
CACTACATGCT
Found at i:527527 original size:3 final size:3
Alignment explanation
Indices: 527519--527561 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
527509 TAATTAAGGA
527519 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
527562 CATTATTTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:530278 original size:28 final size:29
Alignment explanation
Indices: 530218--530279 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
530208 TACCACATAG
**
530218 GCTATTCTTTTCAGAATCCACCACAAATA
1 GCTATTCTTTAAAGAATCCACCACAAATA
* *
530247 -CTATTCTTTAAAGAATTCGCCACAAA-A
1 GCTATTCTTTAAAGAATCCACCACAAATA
530274 GCTATT
1 GCTATT
530280 TTTCCCTGTC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
27 1 0.04
28 27 0.96
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (29 bp):
GCTATTCTTTAAAGAATCCACCACAAATA
Found at i:532617 original size:57 final size:59
Alignment explanation
Indices: 532527--532640 Score: 162
Period size: 57 Copynumber: 2.0 Consensus size: 59
532517 TTAGGTCTTC
* *
532527 TTCATTTTGGAGAAAACTTCATTCATTTCCAAATGATT-CT-ATTTCTCCATTTTCATT
1 TTCATTTTGGAAAAAACTTCAATCATTTCCAAATGATTCCTAATTTCTCCATTTTCATT
* *
532584 TTCATTTTGGAAAAAACTAT-AATCGTTTTCAAATGATTCCTAATTTCTCCATTTTCA
1 TTCATTTTGGAAAAAACT-TCAATCATTTCCAAATGATTCCTAATTTCTCCATTTTCA
532641 CCATTTTTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
57 32 0.64
58 3 0.06
59 15 0.30
ACGTcount: A:0.29, C:0.18, G:0.07, T:0.46
Consensus pattern (59 bp):
TTCATTTTGGAAAAAACTTCAATCATTTCCAAATGATTCCTAATTTCTCCATTTTCATT
Found at i:539330 original size:14 final size:14
Alignment explanation
Indices: 539311--539338 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
539301 TGTGAGTTGA
539311 ATAAGAGTATTAGG
1 ATAAGAGTATTAGG
539325 ATAAGAGTATTAGG
1 ATAAGAGTATTAGG
539339 TTGAATAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (14 bp):
ATAAGAGTATTAGG
Found at i:547356 original size:20 final size:19
Alignment explanation
Indices: 547331--547383 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
547321 TTTATTAATT
547331 TTATTAATTTAATATTAAA
1 TTATTAATTTAATATTAAA
*
547350 TTGATT-ATCTGAATATTAAA
1 TT-ATTAAT-TTAATATTAAA
547370 -T-TTAATTTAATATT
1 TTATTAATTTAATATT
547384 TATTTTGTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
17 9 0.31
18 2 0.07
19 5 0.17
20 13 0.45
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (19 bp):
TTATTAATTTAATATTAAA
Found at i:547368 original size:77 final size:80
Alignment explanation
Indices: 547285--547432 Score: 198
Period size: 77 Copynumber: 1.9 Consensus size: 80
547275 AACAAATTTT
*
547285 ATATTAAATTAAATTTAATACTTATCTTGATAG-T-AT-TT-TATTAATTTTATTA-ATTTAATA
1 ATATTAAATTAAATTTAATACTTATCTTG-TAGATAATATTCTATTAA-TTTAATAGATTTAATA
547345 TTAAATTGATTATCTGA
64 TTAAATTGATTATCTGA
* * *
547362 ATATTAAATTTAATTTAATATTTATTTTGTAGATAAATATTCTATTAATTTAATAGATTTAATAT
1 ATATTAAATTAAATTTAATACTTATCTTGTAGAT-AATATTCTATTAATTTAATAGATTTAATAT
547427 TAAATT
65 TAAATT
547433 TAATCTAATA
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
76 3 0.05
77 27 0.44
79 2 0.03
80 8 0.13
81 21 0.34
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.52
Consensus pattern (80 bp):
ATATTAAATTAAATTTAATACTTATCTTGTAGATAATATTCTATTAATTTAATAGATTTAATATT
AAATTGATTATCTGA
Found at i:548759 original size:67 final size:67
Alignment explanation
Indices: 548681--548815 Score: 243
Period size: 67 Copynumber: 2.0 Consensus size: 67
548671 CAAAGGTGTG
* *
548681 TTTGAAAATAACATAAAATAAATATTGGAATATATAGTTTGAAACTAATTAATAAAAACACGTGA
1 TTTGAAAATAACATAAAATAAATATTGAAATATATAGTTTGAAACTAATTAATAAAAACACGTAA
548746 AT
66 AT
*
548748 TTTGAAAATAACATAAAATAAATATTGAAATATATAGTTTGAAACTAATTAATAAGAACACGTAA
1 TTTGAAAATAACATAAAATAAATATTGAAATATATAGTTTGAAACTAATTAATAAAAACACGTAA
548813 AT
66 AT
548815 T
1 T
548816 ATGTACAACA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.53, C:0.06, G:0.10, T:0.32
Consensus pattern (67 bp):
TTTGAAAATAACATAAAATAAATATTGAAATATATAGTTTGAAACTAATTAATAAAAACACGTAA
AT
Found at i:550363 original size:42 final size:42
Alignment explanation
Indices: 550300--550405 Score: 113
Period size: 42 Copynumber: 2.5 Consensus size: 42
550290 CGTATGACAC
* * * *
550300 GGTTGTGTGCCCAGACTGTGTGAGGGACTAACTTGAGCCACAT
1 GGTTGTGTG-TCAGACAGTGTGAGGCACTAACTTGAACCACAT
* * *
550343 GGTTGTGTGTCAGACCGTGTGAGGCACTGATTTGAACCACAT
1 GGTTGTGTGTCAGACAGTGTGAGGCACTAACTTGAACCACAT
***
550385 GACCGTGTGTCAGACAGTGTG
1 GGTTGTGTGTCAGACAGTGTG
550406 GGCCACAAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
42 44 0.83
43 9 0.17
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (42 bp):
GGTTGTGTGTCAGACAGTGTGAGGCACTAACTTGAACCACAT
Found at i:551595 original size:26 final size:25
Alignment explanation
Indices: 551546--551595 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
551536 GTTGTAAATC
*
551546 AAATAATATCTGTAGAGATTTTCTG
1 AAATAATATCTGTAAAGATTTTCTG
* *
551571 AAATAATCTCTTTAAAGAATTTTCT
1 AAATAATATCTGTAAAG-ATTTTCT
551596 CTCTACAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (25 bp):
AAATAATATCTGTAAAGATTTTCTG
Found at i:551870 original size:37 final size:36
Alignment explanation
Indices: 551823--551893 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 36
551813 CATTTTAGTA
551823 TTAAATTAATA-AAATACTATTAAAATAAGTATTATAT
1 TTAAATTAATATAAA-ACTATTAAAATAA-TATTATAT
* *
551860 TTAATTTAATATTAAACTATTAAAATAATATTAT
1 TTAAATTAATATAAAACTATTAAAATAATATTAT
551894 TTTGGAATAG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
36 6 0.19
37 23 0.74
38 2 0.06
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (36 bp):
TTAAATTAATATAAAACTATTAAAATAATATTATAT
Found at i:554440 original size:37 final size:37
Alignment explanation
Indices: 554390--554465 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
554380 TTTTGGGGTA
554390 CATAGTTAAACTACTACTATAAATACCTTGACCCAAC
1 CATAGTTAAACTACTACTATAAATACCTTGACCCAAC
554427 CATAGTTAAACTACTACTATAAATACCTTGACCCAAC
1 CATAGTTAAACTACTACTATAAATACCTTGACCCAAC
554464 CA
1 CA
554466 CCTGACTCTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.41, C:0.28, G:0.05, T:0.26
Consensus pattern (37 bp):
CATAGTTAAACTACTACTATAAATACCTTGACCCAAC
Found at i:557038 original size:38 final size:38
Alignment explanation
Indices: 556987--557067 Score: 112
Period size: 38 Copynumber: 2.1 Consensus size: 38
556977 TGTTATTGGT
*
556987 TAATTTTTTATTTAAT-AATTTAATATAAGAA-TTTAAGA
1 TAATTTTTCATTTAATCAA-TTAATAT-AGAATTTTAAGA
*
557025 TAATTTTTCATTTAATCAATTAATATAGAATTTTAATA
1 TAATTTTTCATTTAATCAATTAATATAGAATTTTAAGA
557063 TAATT
1 TAATT
557068 AGGGTTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
37 4 0.10
38 33 0.85
39 2 0.05
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (38 bp):
TAATTTTTCATTTAATCAATTAATATAGAATTTTAAGA
Found at i:560936 original size:146 final size:146
Alignment explanation
Indices: 560658--560973 Score: 336
Period size: 146 Copynumber: 2.2 Consensus size: 146
560648 TATTCGTTGG
* *
560658 TTATCCAACTAGCGCT-AGGCGCAACCTTCGTCAATTTATTTAACTAGTGCTGGGCACACAAATC
1 TTATCCGACTAGCGCTGA-GTGCAACCTTCGTCAATTTATTTAACTAGTGCTGGGCACACAAATC
* * *
560722 ATCGGTTATCCAACTAGCGCTAGGCTCAAAACATTTGTTGGTATACTCAAATAGAGCTCGGCTCA
65 ATCGGTTATCCAACTAGCGCTAGGCGCAAAACATTTGTTGGTATACTCAAATAGAGCTAGACTCA
* *
560787 CTATTTACATTATC-GAT
130 CTATTGACATCATCTG-T
* * * *
560804 TTATCCGACTAGCGCTGAGTGCAACCTTTGTCAGTTTATCTT-ACTAGTGTTGGGCATACAAATC
1 TTATCCGACTAGCGCTGAGTGCAACCTTCGTCAATTTAT-TTAACTAGTGCTGGGCACACAAATC
* * * ** * * * *
560868 GTTGATTTATCTGACTAGTGCTGGGCGC-AAACATTTGTTGGTATA-TCCAACTAGATCTAGACT
65 ATCG-GTTATCCAACTAGCGCTAGGCGCAAAACATTTGTTGGTATACT-CAAATAGAGCTAGACT
* *
560931 TACTATTGATATCATCTGT
128 CACTATTGACATCATCTGT
* *
560950 TTATCCGACTAGCGTTGGGTGCAA
1 TTATCCGACTAGCGCTGAGTGCAA
560974 ATTTGGTCAT
Statistics
Matches: 141, Mismatches: 24, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
145 1 0.01
146 119 0.84
147 21 0.15
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (146 bp):
TTATCCGACTAGCGCTGAGTGCAACCTTCGTCAATTTATTTAACTAGTGCTGGGCACACAAATCA
TCGGTTATCCAACTAGCGCTAGGCGCAAAACATTTGTTGGTATACTCAAATAGAGCTAGACTCAC
TATTGACATCATCTGT
Found at i:563870 original size:31 final size:30
Alignment explanation
Indices: 563834--563897 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
563824 TGTAAGGCAT
*
563834 AAATTTT-TTTTACCAACTTTTAAGGAACTTA
1 AAATTTTCTTTT-CCAACTTTTAAAGAAC-TA
*
563865 AAATTTTCTTTTTCAACTTTTAAAGAACTA
1 AAATTTTCTTTTCCAACTTTTAAAGAACTA
563895 AAA
1 AAA
563898 CTTCATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 5 0.17
31 21 0.70
32 4 0.13
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (30 bp):
AAATTTTCTTTTCCAACTTTTAAAGAACTA
Found at i:563907 original size:30 final size:31
Alignment explanation
Indices: 563847--563907 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
563837 TTTTTTTTAC
* *
563847 CAACTTTTAAGGAACTTAAAATTTTCTTTTT
1 CAACTTTTAAAGAACTTAAAATCTTCTTTTT
563878 CAACTTTTAAAGAAC-TAAAA-CTTCATTTTT
1 CAACTTTTAAAGAACTTAAAATCTTC-TTTTT
563908 ATTATTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 3 0.11
30 10 0.37
31 14 0.52
ACGTcount: A:0.36, C:0.15, G:0.05, T:0.44
Consensus pattern (31 bp):
CAACTTTTAAAGAACTTAAAATCTTCTTTTT
Found at i:564528 original size:23 final size:23
Alignment explanation
Indices: 564485--564528 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
564475 AAAATTAAAT
**
564485 TGTAATTTTTATGATAGTAAAAA
1 TGTAATTTTTAAAATAGTAAAAA
*
564508 TGTAATTTTTAAAATATTAAA
1 TGTAATTTTTAAAATAGTAAA
564529 TCAAAATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (23 bp):
TGTAATTTTTAAAATAGTAAAAA
Found at i:564611 original size:18 final size:18
Alignment explanation
Indices: 564577--564611 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
564567 TACATTTATT
**
564577 AATTTAAAAATTTTAAAA
1 AATTTAAAAATCCTAAAA
564595 AATTTAAAAATCCTAAA
1 AATTTAAAAATCCTAAA
564612 TAAAAAATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (18 bp):
AATTTAAAAATCCTAAAA
Found at i:567787 original size:18 final size:18
Alignment explanation
Indices: 567766--567812 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
567756 CCTTTTATAA
* * *
567766 AATTTTATGATTTTTTAT
1 AATTTTATAAATTTTAAT
*
567784 AATTTCATAAATTTTAAT
1 AATTTTATAAATTTTAAT
567802 AATTTTATAAA
1 AATTTTATAAA
567813 CAATTTTATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (18 bp):
AATTTTATAAATTTTAAT
Found at i:568072 original size:31 final size:31
Alignment explanation
Indices: 568013--568116 Score: 162
Period size: 31 Copynumber: 3.5 Consensus size: 31
568003 TATTAATATC
*
568013 CATATGGTCCATATTTTTTT---T-AATAAA
1 CATATGATCCATATTTTTTTGAATAAATAAA
568040 CATATGATCCATATTTTTTTGAATAAATAAA
1 CATATGATCCATATTTTTTTGAATAAATAAA
568071 CATATGATCCATATTTTTTTGAATAAATAAA
1 CATATGATCCATATTTTTTTGAATAAATAAA
*
568102 CATATGGTCCATATT
1 CATATGATCCATATT
568117 AGAGATTCAA
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
27 19 0.27
30 1 0.01
31 51 0.72
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.43
Consensus pattern (31 bp):
CATATGATCCATATTTTTTTGAATAAATAAA
Found at i:572719 original size:56 final size:56
Alignment explanation
Indices: 572621--572832 Score: 257
Period size: 56 Copynumber: 3.8 Consensus size: 56
572611 TGAAGGATAA
* * * *
572621 CTCGAGTAGAGCTATGATTTGCTTACATCTCGGTTAGAGCGTAATGCCATGTAAAG
1 CTCGGGTAGAGCTATGATCTACTTACGTCTCGGTTAGAGCGTAATGCCATGTAAAG
* *
572677 CTCGGGTAGGGTTATGATCTACTTACGTCTCGGTTAGAGCGTAATGCCATGTAGAA-
1 CTCGGGTAGAGCTATGATCTACTTACGTCTCGGTTAGAGCGTAATGCCATGTA-AAG
* ** * * *
572733 CTCAGGTAGAGCTATGATCTGGTTACGTCTCAGTTAGAGCATAATGCCATGTACAG
1 CTCGGGTAGAGCTATGATCTACTTACGTCTCGGTTAGAGCGTAATGCCATGTAAAG
* * *
572789 CTCGGGTAGAGCTATGATC-AGCTTATGTCTCGATTAGAGTGTAA
1 CTCGGGTAGAGCTATGATCTA-CTTACGTCTCGGTTAGAGCGTAA
572833 GGCTAAGGAA
Statistics
Matches: 131, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
55 1 0.01
56 128 0.98
57 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (56 bp):
CTCGGGTAGAGCTATGATCTACTTACGTCTCGGTTAGAGCGTAATGCCATGTAAAG
Found at i:572819 original size:112 final size:112
Alignment explanation
Indices: 572626--572832 Score: 299
Period size: 112 Copynumber: 1.8 Consensus size: 112
572616 GATAACTCGA
* * * * *
572626 GTAGAGCTATGATTTGCTTACATCTCGGTTAGAGCGTAATGCCATGTAAAGCTCGGGTAGGGTTA
1 GTAGAGCTATGATCTGCTTACATCTCAGTTAGAGCATAATGCCATGTAAAGCTCGGGTAGAGCTA
*
572691 TGATCTACTTACGTCTCGGTTAGAGCGTAATGCCATGTAGAACTCAG
66 TGATCTACTTACGTCTCGATTAGAGCGTAATGCCATGTAGAACTCAG
* * *
572738 GTAGAGCTATGATCTGGTTACGTCTCAGTTAGAGCATAATGCCATGTACAGCTCGGGTAGAGCTA
1 GTAGAGCTATGATCTGCTTACATCTCAGTTAGAGCATAATGCCATGTAAAGCTCGGGTAGAGCTA
* *
572803 TGATC-AGCTTATGTCTCGATTAGAGTGTAA
66 TGATCTA-CTTACGTCTCGATTAGAGCGTAA
572833 GGCTAAGGAA
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
111 1 0.01
112 82 0.99
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (112 bp):
GTAGAGCTATGATCTGCTTACATCTCAGTTAGAGCATAATGCCATGTAAAGCTCGGGTAGAGCTA
TGATCTACTTACGTCTCGATTAGAGCGTAATGCCATGTAGAACTCAG
Found at i:579538 original size:36 final size:36
Alignment explanation
Indices: 579350--579520 Score: 216
Period size: 36 Copynumber: 4.8 Consensus size: 36
579340 CTGTTGTGAA
* * **
579350 AGTAAATATGTGAGTATGTTATTCGTGCTGTGAGAT
1 AGTAAATATGTGGGTATGTTATTCATGCCATGAGAT
** * * *
579386 AGTAAATATGTGTATATGTTATTCATACCATGTGAC
1 AGTAAATATGTGGGTATGTTATTCATGCCATGAGAT
* * * *
579422 AGTATATGTGTGGGTATGTTACTCATGCCAAGAGAT
1 AGTAAATATGTGGGTATGTTATTCATGCCATGAGAT
579458 AGTAAATATGTGGGTATGTTATTCATGCCATGAGAT
1 AGTAAATATGTGGGTATGTTATTCATGCCATGAGAT
*
579494 AGTAAATATGTGGTTATGTTATTCATG
1 AGTAAATATGTGGGTATGTTATTCATG
579521 TCTTGTGACA
Statistics
Matches: 113, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 113 1.00
ACGTcount: A:0.30, C:0.08, G:0.24, T:0.38
Consensus pattern (36 bp):
AGTAAATATGTGGGTATGTTATTCATGCCATGAGAT
Found at i:579830 original size:50 final size:50
Alignment explanation
Indices: 579765--579870 Score: 169
Period size: 50 Copynumber: 2.1 Consensus size: 50
579755 CCATTCAACA
* *
579765 GGACAT-TGAGGGGAAATAAGGAGAGTGCTATCTTTACGCTTCTCTTTTG
1 GGACATGTGAGGGGAAATAAGGAGAGTGCTAACTTTACGCTTCACTTTTG
* *
579814 GGACATGTGATGGGAAATAAGGAGAGTGTTAACTTTACGCTTCACTTTTG
1 GGACATGTGAGGGGAAATAAGGAGAGTGCTAACTTTACGCTTCACTTTTG
579864 GGACATG
1 GGACATG
579871 CTAGATGTGA
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
49 6 0.12
50 46 0.88
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.31
Consensus pattern (50 bp):
GGACATGTGAGGGGAAATAAGGAGAGTGCTAACTTTACGCTTCACTTTTG
Found at i:581950 original size:10 final size:10
Alignment explanation
Indices: 581937--581998 Score: 54
Period size: 10 Copynumber: 6.0 Consensus size: 10
581927 ATAATATATA
581937 TTCTTTCTTT
1 TTCTTTCTTT
581947 TTCTTTCTTT
1 TTCTTTCTTT
* **
581957 TTATCAAC-TT
1 TTCT-TTCTTT
581967 TTCTTTCTTT
1 TTCTTTCTTT
*
581977 TTCTCTTTTTT
1 TTCT-TTCTTT
581988 TTCTTTTCTTT
1 TTC-TTTCTTT
581999 ATGTGACTGA
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
9 1 0.03
10 24 0.60
11 14 0.35
12 1 0.03
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.76
Consensus pattern (10 bp):
TTCTTTCTTT
Found at i:582619 original size:17 final size:17
Alignment explanation
Indices: 582567--582606 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
582557 TACAATGCAT
* *
582567 ATGCCAAAACAAAAAAA
1 ATGCAAAAACAATAAAA
582584 ATGCAAAAACAATAAAA
1 ATGCAAAAACAATAAAA
582601 ATGCAA
1 ATGCAA
582607 TGACAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.68, C:0.15, G:0.07, T:0.10
Consensus pattern (17 bp):
ATGCAAAAACAATAAAA
Found at i:583039 original size:21 final size:20
Alignment explanation
Indices: 583008--583056 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
582998 GGGCAATACT
583008 TTCTTCTTCTTCCTTCTCCTC
1 TTCTT-TTCTTCCTTCTCCTC
* *
583029 TTCCTTTTCTTCTTTCTCTTC
1 TT-CTTTTCTTCCTTCTCCTC
583050 TTCTTTT
1 TTCTTTT
583057 GCTCCTTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 5 0.20
21 17 0.68
22 3 0.12
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (20 bp):
TTCTTTTCTTCCTTCTCCTC
Found at i:583042 original size:12 final size:12
Alignment explanation
Indices: 583011--583054 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
583001 CAATACTTTC
583011 TTCTTCTTCCTT
1 TTCTTCTTCCTT
* *
583023 CTCCTCTTCCTT
1 TTCTTCTTCCTT
* *
583035 TTCTTCTTTCTC
1 TTCTTCTTCCTT
583047 TTCTTCTT
1 TTCTTCTT
583055 TTGCTCCTTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (12 bp):
TTCTTCTTCCTT
Found at i:592195 original size:48 final size:48
Alignment explanation
Indices: 592058--592180 Score: 183
Period size: 48 Copynumber: 2.6 Consensus size: 48
592048 CTATCAAAGA
* * * * *
592058 GTTTTATTTGTTAAATACACCTTTGTTTAATAATCTGCATCATTAAGT
1 GTTTTGTTTGTTAAATGCATCTTTGTTTAATAATCTGCATTATTAAAT
*
592106 GTTTTGTTTGTTAAATGCATCTTTGTTTAGTAATCTGCATTATTAAAT
1 GTTTTGTTTGTTAAATGCATCTTTGTTTAATAATCTGCATTATTAAAT
*
592154 GTTTTGTTTGTTAAATGCATATTTGTT
1 GTTTTGTTTGTTAAATGCATCTTTGTT
592181 AAATGTCTCG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 68 1.00
ACGTcount: A:0.25, C:0.09, G:0.14, T:0.52
Consensus pattern (48 bp):
GTTTTGTTTGTTAAATGCATCTTTGTTTAATAATCTGCATTATTAAAT
Found at i:592700 original size:79 final size:79
Alignment explanation
Indices: 592591--592754 Score: 222
Period size: 80 Copynumber: 2.1 Consensus size: 79
592581 AGGGACAAGT
* * * * * *
592591 AAGAAACACATTAAGGTTACATAAGTCTTCATTAAGGA-GAAATACCATGCCTTTTTATCTAAAT
1 AAGACACACATTAAGGATACATAAGTCTTCATTAAGAATAAAATACCATGCCTTTTCAACTAAAT
592655 CAGATCCTAATGAA
66 CAGATCCTAATGAA
** *
592669 AAGACACACATTAAGGATACAATAAGTCTTCATTAAGAATAAAATGTCATGCCTTTTCAACTACA
1 AAGACACACATTAAGGATAC-ATAAGTCTTCATTAAGAATAAAATACCATGCCTTTTCAACTAAA
592734 TCAGATCCTAATGAA
65 TCAGATCCTAATGAA
*
592749 GAGACA
1 AAGACA
592755 TGACTCATTG
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
78 18 0.24
79 17 0.23
80 39 0.53
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (79 bp):
AAGACACACATTAAGGATACATAAGTCTTCATTAAGAATAAAATACCATGCCTTTTCAACTAAAT
CAGATCCTAATGAA
Found at i:596399 original size:45 final size:45
Alignment explanation
Indices: 596333--596422 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
596323 AAGAAAGCTT
596333 AGTAGAAATAAATGAGAAGGAGCCAATTGGAGTGACCTCTATGCC
1 AGTAGAAATAAATGAGAAGGAGCCAATTGGAGTGACCTCTATGCC
* * *
596378 AGTAGAAATGAATGAGGAGGAGCCAATTGGAGTGATCTCTATGCC
1 AGTAGAAATAAATGAGAAGGAGCCAATTGGAGTGACCTCTATGCC
596423 TAGAATTCAC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.21
Consensus pattern (45 bp):
AGTAGAAATAAATGAGAAGGAGCCAATTGGAGTGACCTCTATGCC
Found at i:602114 original size:21 final size:21
Alignment explanation
Indices: 602090--602132 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
602080 GAACCTAAAA
* *
602090 AGAA-AAAGGAAAATGAGGAAG
1 AGAAGAAA-GAAAAAGAAGAAG
602111 AGAAGAAAGAAAAAGAAGAAG
1 AGAAGAAAGAAAAAGAAGAAG
602132 A
1 A
602133 AGAGAAGGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.02
Consensus pattern (21 bp):
AGAAGAAAGAAAAAGAAGAAG
Found at i:607761 original size:21 final size:21
Alignment explanation
Indices: 607737--607779 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
607727 CGACACAAGA
*
607737 TGATATTATCGTGCCATCTGT
1 TGATATTACCGTGCCATCTGT
607758 TGATATTACCGTGCCATCTGT
1 TGATATTACCGTGCCATCTGT
607779 T
1 T
607780 AGTCTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.42
Consensus pattern (21 bp):
TGATATTACCGTGCCATCTGT
Found at i:609597 original size:14 final size:14
Alignment explanation
Indices: 609578--609606 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
609568 TTAGATTATG
609578 TCCTCGCATCTCTT
1 TCCTCGCATCTCTT
609592 TCCTCGCATCTCTT
1 TCCTCGCATCTCTT
609606 T
1 T
609607 AATACTTTGG
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:0.07, C:0.41, G:0.07, T:0.45
Consensus pattern (14 bp):
TCCTCGCATCTCTT
Found at i:626318 original size:20 final size:21
Alignment explanation
Indices: 626282--626320 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
626272 TTTTTTATTA
*
626282 TTTACTTTTATTTGTTTCACT
1 TTTACTTTTAGTTGTTTCACT
626303 TTTACTTTT-GTTGTTTCA
1 TTTACTTTTAGTTGTTTCA
626321 AATTCCTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.13, C:0.13, G:0.08, T:0.67
Consensus pattern (21 bp):
TTTACTTTTAGTTGTTTCACT
Found at i:635784 original size:68 final size:68
Alignment explanation
Indices: 635675--635812 Score: 276
Period size: 68 Copynumber: 2.0 Consensus size: 68
635665 CATTACAAAG
635675 GTAACAACACCCTAGTATATGCCATAAAACTGAGTGATGTAACTCCTATCGAACAAGCTCCTAGG
1 GTAACAACACCCTAGTATATGCCATAAAACTGAGTGATGTAACTCCTATCGAACAAGCTCCTAGG
635740 ATA
66 ATA
635743 GTAACAACACCCTAGTATATGCCATAAAACTGAGTGATGTAACTCCTATCGAACAAGCTCCTAGG
1 GTAACAACACCCTAGTATATGCCATAAAACTGAGTGATGTAACTCCTATCGAACAAGCTCCTAGG
635808 ATA
66 ATA
635811 GT
1 GT
635813 GTGATTCTTC
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (68 bp):
GTAACAACACCCTAGTATATGCCATAAAACTGAGTGATGTAACTCCTATCGAACAAGCTCCTAGG
ATA
Found at i:636118 original size:25 final size:25
Alignment explanation
Indices: 636063--636147 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 25
636053 AAGAGCCCAG
* * **
636063 ACAGAATAGCGCTCTTACAAGCCAA
1 ACAGAATATCGCTCTTACGAGATAA
*
636088 ACAGAATATCGCTCTTACGAGTTAA
1 ACAGAATATCGCTCTTACGAGATAA
* * *
636113 ATAGAATATCACTCTTAAGAGATAA
1 ACAGAATATCGCTCTTACGAGATAA
*
636138 ACAAAATATC
1 ACAGAATATC
636148 TTCATCGTCT
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.44, C:0.20, G:0.13, T:0.24
Consensus pattern (25 bp):
ACAGAATATCGCTCTTACGAGATAA
Found at i:665440 original size:20 final size:21
Alignment explanation
Indices: 665415--665453 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
665405 GCAAGGAATT
665415 TGAAAC-AACAAAAGTAAAAG
1 TGAAACAAACAAAAGTAAAAG
*
665435 TGAAACAAATAAAAGTAAA
1 TGAAACAAACAAAAGTAAA
665454 TAACAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.67, C:0.08, G:0.13, T:0.13
Consensus pattern (21 bp):
TGAAACAAACAAAAGTAAAAG
Found at i:674871 original size:21 final size:21
Alignment explanation
Indices: 674847--674888 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
674837 CCCTAACTAT
*
674847 CGATACCTGCATAAGATCTAC
1 CGATACATGCATAAGATCTAC
674868 CGATACATGCATAAGATCTAC
1 CGATACATGCATAAGATCTAC
674889 TGAAACAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (21 bp):
CGATACATGCATAAGATCTAC
Found at i:681937 original size:25 final size:25
Alignment explanation
Indices: 681879--681937 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
681869 AAAAATAAGA
681879 TTATTTTAATAGTTTAATATTAAAT
1 TTATTTTAATAGTTTAATATTAAAT
* *
681904 TTAATTTAATAGTATT-TTATT-AAT
1 TTATTTTAATAGT-TTAATATTAAAT
681928 TTATTATTAA
1 TTATT-TTAA
681938 AGTGGTTATC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 7 0.24
25 20 0.69
26 2 0.07
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (25 bp):
TTATTTTAATAGTTTAATATTAAAT
Found at i:682734 original size:61 final size:61
Alignment explanation
Indices: 682659--682780 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
682649 GGTACATATG
682659 ATAGGAAATGTTTACATTTTGAACATAACCATATATGTTTGGTGATATGTATATGTATTTA
1 ATAGGAAATGTTTACATTTTGAACATAACCATATATGTTTGGTGATATGTATATGTATTTA
682720 ATAGGAAATGTTTACATTTTGAACATAACCATATATGTTTGGTGATATGTATATGTATTTA
1 ATAGGAAATGTTTACATTTTGAACATAACCATATATGTTTGGTGATATGTATATGTATTTA
682781 TCTAGCGAGT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (61 bp):
ATAGGAAATGTTTACATTTTGAACATAACCATATATGTTTGGTGATATGTATATGTATTTA
Found at i:684118 original size:18 final size:18
Alignment explanation
Indices: 684095--684129 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
684085 CATAAATCAC
*
684095 TATCTTCAAACAGAACAT
1 TATCTTCAAACACAACAT
*
684113 TATCTTCTAACACAACA
1 TATCTTCAAACACAACA
684130 AACTCATTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.26, G:0.03, T:0.29
Consensus pattern (18 bp):
TATCTTCAAACACAACAT
Found at i:688477 original size:37 final size:38
Alignment explanation
Indices: 688390--688477 Score: 99
Period size: 38 Copynumber: 2.3 Consensus size: 38
688380 TGCACTTAAG
* *
688390 ACTGTCGCTACATAAATATTATTCAAATTGCATCCAGA
1 ACTGTCGCTGCATAAATATTATTCAAATTGCACCCAGA
* * * *
688428 ACTATCGTTGCATAAGTATTCTTC-AATTGCACCCAGGA
1 ACTGTCGCTGCATAAATATTATTCAAATTGCACCCA-GA
688466 A-TGTCGCTGCAT
1 ACTGTCGCTGCAT
688478 GAACATGTAC
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
37 19 0.46
38 22 0.54
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.32
Consensus pattern (38 bp):
ACTGTCGCTGCATAAATATTATTCAAATTGCACCCAGA
Found at i:727071 original size:52 final size:52
Alignment explanation
Indices: 726784--727063 Score: 393
Period size: 52 Copynumber: 5.4 Consensus size: 52
726774 AAAATGAAAA
* * *
726784 AGGTCTGATAACTATGTGTCATCATGAGTATACGAATCCTTTACGGATTATG
1 AGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * *
726836 AGGTCCGATGACTATGTGTCATCGTGAGTATATGACTCCTTTACAGATTATG
1 AGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* *
726888 AGGTCTGATGACTATGTGTCATCGTGAATATATGAATCCTTTACAGATTATG
1 AGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* *
726940 AGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTATA
1 AGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* ** *
726992 AGGTCTGATAACTATGTGTCATCGTGAGTATAT-AATTCCCAATACGGATTA-A
1 AGGTCTGATGACTATGTGTCATCGTGAGTATATGAA-T-CCTTTACGGATTATG
*
727044 AGGTCTGATGACTCTGTGTC
1 AGGTCTGATGACTATGTGTC
727064 TTTGTGAGCA
Statistics
Matches: 207, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
51 2 0.01
52 195 0.94
53 10 0.05
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (52 bp):
AGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
Found at i:728850 original size:38 final size:36
Alignment explanation
Indices: 728808--728986 Score: 130
Period size: 38 Copynumber: 4.8 Consensus size: 36
728798 AATTCTGGAC
*
728808 GCAATTCTGGACATGTTTATGCAGCGACATTCCTGGGT
1 GCAATT-TGGA-ATATTTATGCAGCGACATTCCTGGGT
* * * *
728846 GCAA-TTGAAGAATACTTATGCAGCGATAGTT-CTAGAT
1 GCAATTTG--GAATATTTATGCAGCGACA-TTCCTGGGT
*
728883 GCAATTTGGAGAATATTTATGCAGCGACACTCCTGGGT
1 GCAATTT-G-GAATATTTATGCAGCGACATTCCTGGGT
* * * * * *
728921 GCAATTTAAGAATACTTATGTAGCGATAGTT-TTGGAT
1 GCAATTT-GGAATATTTATGCAGCGACA-TTCCTGGGT
728958 GCAATTTGAAGAATATTTATGCAGCGACA
1 GCAATTTG--GAATATTTATGCAGCGACA
728987 GTCTTGGGCT
Statistics
Matches: 110, Mismatches: 22, Indels: 18
0.73 0.15 0.12
Matches are distributed among these distances:
36 2 0.02
37 51 0.46
38 56 0.51
39 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.31
Consensus pattern (36 bp):
GCAATTTGGAATATTTATGCAGCGACATTCCTGGGT
Found at i:728886 original size:37 final size:38
Alignment explanation
Indices: 728824--728984 Score: 184
Period size: 38 Copynumber: 4.3 Consensus size: 38
728814 CTGGACATGT
* *
728824 TTATGCAGCGACA-TTCCTGGGTGCAA-TTGAAGAATAC
1 TTATGCAGCGATAGTT-CTGGATGCAATTTGAAGAATAC
* * *
728861 TTATGCAGCGATAGTTCTAGATGCAATTTGGAGAATAT
1 TTATGCAGCGATAGTTCTGGATGCAATTTGAAGAATAC
* * * *
728899 TTATGCAGCGACACTCCTGGGTGCAATTT-AAGAATAC
1 TTATGCAGCGATAGTTCTGGATGCAATTTGAAGAATAC
* * *
728936 TTATGTAGCGATAGTTTTGGATGCAATTTGAAGAATAT
1 TTATGCAGCGATAGTTCTGGATGCAATTTGAAGAATAC
728974 TTATGCAGCGA
1 TTATGCAGCGA
728985 CAGTCTTGGG
Statistics
Matches: 101, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
37 49 0.49
38 52 0.51
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (38 bp):
TTATGCAGCGATAGTTCTGGATGCAATTTGAAGAATAC
Found at i:728932 original size:75 final size:75
Alignment explanation
Indices: 728823--728986 Score: 274
Period size: 75 Copynumber: 2.2 Consensus size: 75
728813 TCTGGACATG
*
728823 TTTATGCAGCGACATTCCTGGGTGCAATTGAAGAATACTTATGCAGCGATAGTTCTAGATGCAAT
1 TTTATGCAGCGACACTCCTGGGTGCAATTGAAGAATACTTATGCAGCGATAGTTCTAGATGCAAT
*
728888 TTGGAGAATA
66 TTGAAGAATA
* * * *
728898 TTTATGCAGCGACACTCCTGGGTGCAATTTAAGAATACTTATGTAGCGATAGTTTTGGATGCAAT
1 TTTATGCAGCGACACTCCTGGGTGCAATTGAAGAATACTTATGCAGCGATAGTTCTAGATGCAAT
728963 TTGAAGAATA
66 TTGAAGAATA
728973 TTTATGCAGCGACA
1 TTTATGCAGCGACA
728987 GTCTTGGGCT
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 83 1.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (75 bp):
TTTATGCAGCGACACTCCTGGGTGCAATTGAAGAATACTTATGCAGCGATAGTTCTAGATGCAAT
TTGAAGAATA
Found at i:730951 original size:17 final size:17
Alignment explanation
Indices: 730926--730981 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 17
730916 TACAATGATA
*
730926 AATGGAAATGCAATGAC
1 AATGCAAATGCAATGAC
*
730943 AATGCAAATGCAGTGAC
1 AATGCAAATGCAATGAC
** *
730960 AATTAAAATGTAATGAC
1 AATGCAAATGCAATGAC
730977 AATGC
1 AATGC
730982 TTACTAACAT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.21
Consensus pattern (17 bp):
AATGCAAATGCAATGAC
Found at i:731519 original size:3 final size:3
Alignment explanation
Indices: 731511--731575 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
731501 CCCCAATAAA
731511 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
731559 TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TA
731576 ATATTAATAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:732749 original size:22 final size:24
Alignment explanation
Indices: 732705--732750 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
732695 TAACGGTCAA
*
732705 TGGTCAACGATCATGGTCAACGGT
1 TGGTCAACGATCATGATCAACGGT
732729 TGGTCAACGA-C-TGATCAACGGT
1 TGGTCAACGATCATGATCAACGGT
732751 CTGACTTGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.48
23 1 0.05
24 10 0.48
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (24 bp):
TGGTCAACGATCATGATCAACGGT
Found at i:740797 original size:39 final size:39
Alignment explanation
Indices: 740749--740896 Score: 215
Period size: 39 Copynumber: 3.8 Consensus size: 39
740739 CTTAAATTTG
* * * *
740749 GTATTGTATTGCAGTGTTTACAGTGTCATTGCTATTTCA
1 GTATGGTATTGTAGTGTTTACAGTGTCACTGCTAGTTCA
*
740788 GTATGGTATTGTAATGTTTACAGTGTCACTGCTAGTTCA
1 GTATGGTATTGTAGTGTTTACAGTGTCACTGCTAGTTCA
* *
740827 GTATGGTACTGTAGTGTTTACAGTGTCACTACTAGTTCA
1 GTATGGTATTGTAGTGTTTACAGTGTCACTGCTAGTTCA
* *
740866 ATATCGTATTGTAGTGTTTACAGTGTCACTG
1 GTATGGTATTGTAGTGTTTACAGTGTCACTG
740897 TCAGTTTAGT
Statistics
Matches: 97, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 97 1.00
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.42
Consensus pattern (39 bp):
GTATGGTATTGTAGTGTTTACAGTGTCACTGCTAGTTCA
Found at i:740908 original size:78 final size:77
Alignment explanation
Indices: 740682--740908 Score: 215
Period size: 78 Copynumber: 2.9 Consensus size: 77
740672 TATCAATCTA
* * * * * * * * * *
740682 GTAGTGTTTACAGTCTTACTACTACTCAATATAGCATTATGGTATTTATAGTGTCACCT-TAAAT
1 GTAGTGTTTACAGTGTCACTACTATTCAATATAGTATTGTAGTGTTTACAGTGTCA-CTGTCAGT
* * *
740746 TTGGTATTGTATT
65 TTAGTATGGTACT
* * * * * *
740759 GCAGTGTTTACAGTGTCATTGCTATTTCAGTATGGTATTGTAATGTTTACAGTGTCACTG-CTAG
1 GTAGTGTTTACAGTGTCACTACTA-TTCAATATAGTATTGTAGTGTTTACAGTGTCACTGTC-AG
*
740823 TTCAGTATGGTACT
64 TTTAGTATGGTACT
*
740837 GTAGTGTTTACAGTGTCACTACTAGTTCAATATCGTATTGTAGTGTTTACAGTGTCACTGTCAGT
1 GTAGTGTTTACAGTGTCACTACTA-TTCAATATAGTATTGTAGTGTTTACAGTGTCACTGTCAGT
740902 TTAGTAT
65 TTAGTAT
740909 TTTGATAACT
Statistics
Matches: 118, Mismatches: 28, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
77 21 0.18
78 96 0.81
79 1 0.01
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.42
Consensus pattern (77 bp):
GTAGTGTTTACAGTGTCACTACTATTCAATATAGTATTGTAGTGTTTACAGTGTCACTGTCAGTT
TAGTATGGTACT
Found at i:741161 original size:73 final size:75
Alignment explanation
Indices: 741003--741164 Score: 188
Period size: 73 Copynumber: 2.2 Consensus size: 75
740993 GTCCAGTCTA
* * *
741003 TGTAACTCACTGTTTTTGATTTCACAAAATAAATAAATATCCACACGGTCTGGCACACGCTCGTG
1 TGTAACTCACTGTTTTTGATTTCACAAAACAAAT-AATATCCACACGGTCTAGCACACGCTCATG
**
741068 TGTCCAACCCG
65 TACCCAACCCG
* * *
741079 TGTAACTCACTGTTTTTGATTTCACAAAACCACAT-GT-T-CACACGGTCTAGTACACG-TCCAT
1 TGTAACTCACTGTTTTTGATTTCACAAAA-CAAATAATATCCACACGGTCTAGCACACGCT-CAT
*
741140 GTACCCATCCCG
64 GTACCCAACCCG
741152 TGTAACTCACTGT
1 TGTAACTCACTGT
741165 AACTTATTTA
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
72 1 0.01
73 40 0.53
74 1 0.01
75 1 0.01
76 29 0.39
77 3 0.04
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (75 bp):
TGTAACTCACTGTTTTTGATTTCACAAAACAAATAATATCCACACGGTCTAGCACACGCTCATGT
ACCCAACCCG
Found at i:742838 original size:17 final size:18
Alignment explanation
Indices: 742802--742843 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
742792 TATATAAGAC
742802 AAAAA-AAATTAAAGTTA
1 AAAAATAAATTAAAGTTA
*
742819 AAACATAAATTAAA-TTA
1 AAAAATAAATTAAAGTTA
742836 AAAAATAA
1 AAAAATAA
742844 TAAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (18 bp):
AAAAATAAATTAAAGTTA
Found at i:743660 original size:18 final size:18
Alignment explanation
Indices: 743632--743667 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
743622 ATGATGATGA
743632 TTATAATTTTAAAATAATT
1 TTATAATTTTAAAA-AATT
743651 TTAT-ATTTTAAAAAATT
1 TTATAATTTTAAAAAATT
743668 AAATTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 9 0.53
19 4 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTATAATTTTAAAAAATT
Found at i:743705 original size:16 final size:15
Alignment explanation
Indices: 743680--743721 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
743670 ATTAATTTTT
743680 AAATAA-TTTAA-AA
1 AAATAATTTTAAGAA
743693 AAATTATATTTTAAGAA
1 AAA-TA-ATTTTAAGAA
743710 AAATAATTTTAA
1 AAATAATTTTAA
743722 TAATTTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 3 0.12
14 2 0.08
15 8 0.32
16 7 0.28
17 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (15 bp):
AAATAATTTTAAGAA
Found at i:744696 original size:30 final size:30
Alignment explanation
Indices: 744653--744715 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
744643 TAACATCCTT
* * *
744653 AAAATTAAAAAAAAATCTAATTTTTTTTAA
1 AAAATTAAAAAAAAATATAATATTTTCTAA
* *
744683 AAAATTCATAAAAAATATAATATTTTCTAA
1 AAAATTAAAAAAAAATATAATATTTTCTAA
744713 AAA
1 AAA
744716 CCTAAAATCC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.37
Consensus pattern (30 bp):
AAAATTAAAAAAAAATATAATATTTTCTAA
Found at i:745336 original size:23 final size:23
Alignment explanation
Indices: 745287--745337 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
745277 ACTTGAGTTG
* * * *
745287 ATTTATAAGGAAATCATTTTTTT
1 ATTTATAAGAAAAGCATTTATTA
*
745310 ATTTTTAAGAAAAGCATTTATTA
1 ATTTATAAGAAAAGCATTTATTA
745333 ATTTA
1 ATTTA
745338 AATTGTTAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.39, C:0.04, G:0.08, T:0.49
Consensus pattern (23 bp):
ATTTATAAGAAAAGCATTTATTA
Found at i:750890 original size:26 final size:26
Alignment explanation
Indices: 750830--750883 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
750820 ATTCTGGGTG
750830 CAATTTTGGACACGTTCATGCAACGA
1 CAATTTTGGACACGTTCATGCAACGA
* * *
750856 CAATTTTGGACATGTTTATGCAGCGA
1 CAATTTTGGACACGTTCATGCAACGA
750882 CA
1 CA
750884 TTCTTGGGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (26 bp):
CAATTTTGGACACGTTCATGCAACGA
Found at i:750911 original size:37 final size:38
Alignment explanation
Indices: 750870--750970 Score: 116
Period size: 38 Copynumber: 2.7 Consensus size: 38
750860 TTTGGACATG
** *
750870 TTTATGCAGCGACA-TTCTTGGGTTCAA-TTGAAGAATA
1 TTTATGCAGCGACAGTTC-TGAATGCAATTTGAAGAATA
* *
750907 TTTATGCAACGATAGTTCTGAATGCAATTTGAAGAATA
1 TTTATGCAGCGACAGTTCTGAATGCAATTTGAAGAATA
* *
750945 TTTATGCAGCGATAGTTTTGAATGCA
1 TTTATGCAGCGACAGTTCTGAATGCA
750971 TTCCAGAAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
37 18 0.33
38 37 0.67
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.36
Consensus pattern (38 bp):
TTTATGCAGCGACAGTTCTGAATGCAATTTGAAGAATA
Found at i:750947 original size:38 final size:38
Alignment explanation
Indices: 750897--750970 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
750887 TTGGGTTCAA
750897 TTGAAGAATATTTATGCAACGATAGTTCTGAATGCAAT
1 TTGAAGAATATTTATGCAACGATAGTTCTGAATGCAAT
* *
750935 TTGAAGAATATTTATGCAGCGATAGTTTTGAATGCA
1 TTGAAGAATATTTATGCAACGATAGTTCTGAATGCA
750971 TTCCAGAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.35
Consensus pattern (38 bp):
TTGAAGAATATTTATGCAACGATAGTTCTGAATGCAAT
Found at i:751037 original size:36 final size:36
Alignment explanation
Indices: 750992--751068 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 36
750982 TTCCTGCAGT
*
750992 GACAATTTTGGTG-CAATCT-GAAAGTGCTCATGCAAC
1 GACAATTTTGG-GACAATCTAG-AAGTGCTCATACAAC
*
751028 GACAGTTTTGGGCACAATCTAGAAGTGCTCATACAAC
1 GACAATTTTGGG-ACAATCTAGAAGTGCTCATACAAC
751065 GACA
1 GACA
751069 TTAGTAGTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
35 1 0.03
36 10 0.28
37 24 0.67
38 1 0.03
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (36 bp):
GACAATTTTGGGACAATCTAGAAGTGCTCATACAAC
Found at i:752604 original size:34 final size:34
Alignment explanation
Indices: 752566--752652 Score: 113
Period size: 34 Copynumber: 2.6 Consensus size: 34
752556 AAACAAGTTA
* *
752566 GCATAACATGTAGGCTCACATGTACCTAGGGTTT
1 GCATAACATATAGGCTCACATGTACCTAAGGTTT
* * * *
752600 GCATAACATATAGGTTCGCGTGTTCCTAAGGTTT
1 GCATAACATATAGGCTCACATGTACCTAAGGTTT
752634 GCAT-ACATATAGGCTCACA
1 GCATAACATATAGGCTCACA
752653 CGTAATATTT
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
33 12 0.27
34 32 0.73
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.30
Consensus pattern (34 bp):
GCATAACATATAGGCTCACATGTACCTAAGGTTT
Found at i:752810 original size:45 final size:45
Alignment explanation
Indices: 752751--752880 Score: 170
Period size: 46 Copynumber: 2.8 Consensus size: 45
752741 TATTAACCTA
* * * * * *
752751 GGGTTTGCACGTAAATCATAGAGCTTCACATGTCATAAATAATTG
1 GGGTTTGAAAGTAAATGATAGGGGTTCGCATGTCATAAATAATTG
*
752796 GGGTTTGAAAGTAAATGATAGGGGGTTTGCATGTCATAAATAATTG
1 GGGTTTGAAAGTAAATGATA-GGGGTTCGCATGTCATAAATAATTG
*
752842 GGGTTTGTAAGTAAATGATAAGGGGTTCGCATGTCATAA
1 GGGTTTGAAAGTAAATGAT-AGGGGTTCGCATGTCATAA
752881 GCAATCAGGG
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
45 17 0.23
46 56 0.76
47 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.27, T:0.32
Consensus pattern (45 bp):
GGGTTTGAAAGTAAATGATAGGGGTTCGCATGTCATAAATAATTG
Found at i:752811 original size:21 final size:21
Alignment explanation
Indices: 752786--752857 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
752776 TCACATGTCA
752786 TAAATAATTGGGGTTTGAAAG
1 TAAATAATTGGGGTTTGAAAG
* * * *
752807 TAAATGATAGGGGGTTTGCATG
1 TAAATAAT-TGGGGTTTGAAAG
*
752829 TCATAAATAATTGGGGTTTGTAAG
1 ---TAAATAATTGGGGTTTGAAAG
752853 TAAAT
1 TAAAT
752858 GATAAGGGGT
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
21 12 0.31
22 10 0.26
24 10 0.26
25 7 0.18
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.35
Consensus pattern (21 bp):
TAAATAATTGGGGTTTGAAAG
Found at i:752823 original size:22 final size:22
Alignment explanation
Indices: 752795--752868 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
752785 ATAAATAATT
*
752795 GGGGTTTGAAAGTAAATGATAG
1 GGGGTTTGAAAGTAAATGATAA
* *
752817 GGGGTTTGCATGTCATAA--ATAA
1 GGGGTTTGAAAGT-A-AATGATAA
*
752839 TTGGGGTTTGTAAGTAAATGATAA
1 --GGGGTTTGAAAGTAAATGATAA
752863 GGGGTT
1 GGGGTT
752869 CGCATGTCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
22 22 0.54
23 2 0.05
24 17 0.41
ACGTcount: A:0.31, C:0.03, G:0.34, T:0.32
Consensus pattern (22 bp):
GGGGTTTGAAAGTAAATGATAA
Found at i:752837 original size:46 final size:46
Alignment explanation
Indices: 752779--752880 Score: 177
Period size: 46 Copynumber: 2.2 Consensus size: 46
752769 TAGAGCTTCA
* *
752779 CATGTCATAAATAATTGGGGTTTGAAAGTAAATGATAGGGGGTTTG
1 CATGTCATAAATAATTGGGGTTTGAAAGTAAATGATAAGGGGTTCG
*
752825 CATGTCATAAATAATTGGGGTTTGTAAGTAAATGATAAGGGGTTCG
1 CATGTCATAAATAATTGGGGTTTGAAAGTAAATGATAAGGGGTTCG
752871 CATGTCATAA
1 CATGTCATAA
752881 GCAATCAGGG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 53 1.00
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.32
Consensus pattern (46 bp):
CATGTCATAAATAATTGGGGTTTGAAAGTAAATGATAAGGGGTTCG
Found at i:752862 original size:24 final size:24
Alignment explanation
Indices: 752789--752862 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
752779 CATGTCATAA
752789 ATAATTGGGGTTTGAAAGTAAATG
1 ATAATTGGGGTTTGAAAGTAAATG
* * *
752813 AT-A-GGGGGTTTGCATGTCATAA--
1 ATAATTGGGGTTTGAAAGT-A-AATG
*
752835 ATAATTGGGGTTTGTAAGTAAATG
1 ATAATTGGGGTTTGAAAGTAAATG
752859 ATAA
1 ATAA
752863 GGGGTTCGCA
Statistics
Matches: 38, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
22 15 0.39
23 4 0.11
24 19 0.50
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.34
Consensus pattern (24 bp):
ATAATTGGGGTTTGAAAGTAAATG
Found at i:752892 original size:46 final size:46
Alignment explanation
Indices: 752779--752892 Score: 138
Period size: 46 Copynumber: 2.5 Consensus size: 46
752769 TAGAGCTTCA
* ** * *
752779 CATGTCATAAATAATTGGGGTTTGAAAGTAAATGATAGGGGGTTTG
1 CATGTCATAAACAATCAGGGTTTGAAAGTAAATGATAAGGGGTTCG
* ** *
752825 CATGTCATAAATAATTGGGGTTTGTAAGTAAATGATAAGGGGTTCG
1 CATGTCATAAACAATCAGGGTTTGAAAGTAAATGATAAGGGGTTCG
*
752871 CATGTCATAAGCAATCAGGGTT
1 CATGTCATAAACAATCAGGGTT
752893 CGCATGTATA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 61 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (46 bp):
CATGTCATAAACAATCAGGGTTTGAAAGTAAATGATAAGGGGTTCG
Found at i:754046 original size:15 final size:15
Alignment explanation
Indices: 754026--754056 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
754016 TTAAATGCTA
754026 ATTGGAAGATAAGGT
1 ATTGGAAGATAAGGT
754041 ATTGGAAGATAAGGT
1 ATTGGAAGATAAGGT
754056 A
1 A
754057 AGGCACCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.32, T:0.26
Consensus pattern (15 bp):
ATTGGAAGATAAGGT
Found at i:757635 original size:101 final size:103
Alignment explanation
Indices: 757511--757699 Score: 260
Period size: 105 Copynumber: 1.8 Consensus size: 103
757501 TTCTTTTTTA
757511 TTATTATTTATATTTAATTGTTTATTCTTA-CATTTAA-TTTA-TTGATTTTTTTGTTTATTTAT
1 TTATTATTTATATTTAATTGTTTATT-TTAGCATTTAATTTTATTTGATTTTTTTGTTTATTTAT
*
757573 -TTATTTGTCATTTATTTTCATGCCTAATCTCAATTATTT
65 ATT-GTTGTCATTTATTTTCATGCCTAATCTCAATTATTT
* ** *
757612 TTATTGTTTATATTTGTTTGTTTATTTTAGCATTTAATTTTTATTTTTATTTTTTTGTTTATTTA
1 TTATTATTTATATTTAATTGTTTATTTTAGCATTTAA-TTTTA-TTTGATTTTTTTGTTTATTTA
*
757677 TATTGTTGTTATTTATTTTCATG
64 TATTGTTGTCATTTATTTTCATG
757700 TCATTTTATT
Statistics
Matches: 76, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
100 3 0.04
101 30 0.39
103 4 0.05
105 37 0.49
106 2 0.03
ACGTcount: A:0.21, C:0.05, G:0.07, T:0.67
Consensus pattern (103 bp):
TTATTATTTATATTTAATTGTTTATTTTAGCATTTAATTTTATTTGATTTTTTTGTTTATTTATA
TTGTTGTCATTTATTTTCATGCCTAATCTCAATTATTT
Found at i:759305 original size:2 final size:2
Alignment explanation
Indices: 759298--759322 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
759288 AACAAGTTTG
759298 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
759323 ATTGACTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:761266 original size:40 final size:40
Alignment explanation
Indices: 761211--761286 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
761201 GAGTTTGGAC
761211 CATAAACCCTGCAAAAAGTAAAGCAATAGCGACATTATTT
1 CATAAACCCTGCAAAAAGTAAAGCAATAGCGACATTATTT
*
761251 CATAAACACC-GCAAAAGGTAAAGCAATAGCGACATT
1 CATAAAC-CCTGCAAAAAGTAAAGCAATAGCGACATT
761287 TATGACAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
40 32 0.94
41 2 0.06
ACGTcount: A:0.46, C:0.21, G:0.14, T:0.18
Consensus pattern (40 bp):
CATAAACCCTGCAAAAAGTAAAGCAATAGCGACATTATTT
Found at i:761331 original size:41 final size:41
Alignment explanation
Indices: 761254--761496 Score: 267
Period size: 41 Copynumber: 5.9 Consensus size: 41
761244 ATTATTTCAT
* * *
761254 AAACACCGCAAAAGGTAA-AGCAATAGCGACATTTATGACA
1 AAACGCCGCAAAAGGTAAGAGCATTAGCGACGTTTATGACA
* ** * *
761294 AAACGCCACAAAAGCAAAGAGCATTAACAACGTTTATGACA
1 AAACGCCGCAAAAGGTAAGAGCATTAGCGACGTTTATGACA
* *
761335 AAACGCCGCAAAAGGTAAGAGCATTAGTGGA-GTTTATGAGA
1 AAACGCCGCAAAAGGTAAGAGCATTAG-CGACGTTTATGACA
* * *
761376 AAACGCCGCAAAAGCTAAGAGTATTAGCGATGTTTATGACA
1 AAACGCCGCAAAAGGTAAGAGCATTAGCGACGTTTATGACA
* * * * *
761417 AAATGCCACAAAAGGTAAGAGCATTACCGACATTTATGAAA
1 AAACGCCGCAAAAGGTAAGAGCATTAGCGACGTTTATGACA
*
761458 AAATGCCGCAAAAAGGTAAGAGCATTAGC-AGCGTTTATG
1 AAACGCCGC-AAAAGGTAAGAGCATTAGCGA-CGTTTATG
761497 GGAGAAACAC
Statistics
Matches: 168, Mismatches: 30, Indels: 8
0.82 0.15 0.04
Matches are distributed among these distances:
40 16 0.10
41 126 0.75
42 26 0.15
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (41 bp):
AAACGCCGCAAAAGGTAAGAGCATTAGCGACGTTTATGACA
Found at i:762179 original size:18 final size:16
Alignment explanation
Indices: 762150--762202 Score: 52
Period size: 18 Copynumber: 3.1 Consensus size: 16
762140 TTTTATAATA
762150 TTTTTTGAATTTTTAT
1 TTTTTTGAATTTTTAT
762166 TTTTTTGACTATTTTTAT
1 TTTTTTGA--ATTTTTAT
* *
762184 AATTTTTAAATTATTTAT
1 -TTTTTTGAATT-TTTAT
762202 T
1 T
762203 GAAGTGACGT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
16 8 0.27
17 3 0.10
18 13 0.43
19 6 0.20
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.70
Consensus pattern (16 bp):
TTTTTTGAATTTTTAT
Found at i:763610 original size:42 final size:42
Alignment explanation
Indices: 763523--763635 Score: 109
Period size: 42 Copynumber: 2.6 Consensus size: 42
763513 TTAGAGGTCA
* * * ** * *
763523 AGCAATAGCGACGTTTATGAAAAAAACACCGCAAAAGGTATAG
1 AGCAATAGAGACATTTATG-AAAAAACGCAACAAAAAGTAAAG
*
763566 AGCAATAGAGGCATTTATGAAAAAACGCAACAAAAAGTAAAG
1 AGCAATAGAGACATTTATGAAAAAACGCAACAAAAAGTAAAG
* * *
763608 AGCATTAGCGACATTTATGGGAAAAACG
1 AGCAATAGAGACATTTAT-GAAAAAACG
763636 TCGTTAAAGG
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 33 0.58
43 24 0.42
ACGTcount: A:0.48, C:0.14, G:0.21, T:0.17
Consensus pattern (42 bp):
AGCAATAGAGACATTTATGAAAAAACGCAACAAAAAGTAAAG
Found at i:763822 original size:14 final size:17
Alignment explanation
Indices: 763779--763841 Score: 117
Period size: 17 Copynumber: 3.7 Consensus size: 17
763769 ATTACTCTGA
*
763779 CCCTTCTCTTCTTCACA
1 CCCTTCTCTTCTTCACG
763796 CCCTTCTCTTCTTCACG
1 CCCTTCTCTTCTTCACG
763813 CCCTTCTCTTCTTCACG
1 CCCTTCTCTTCTTCACG
763830 CCCTTCTCTTCT
1 CCCTTCTCTTCT
763842 CTAAGATCCA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
17 45 1.00
ACGTcount: A:0.06, C:0.48, G:0.03, T:0.43
Consensus pattern (17 bp):
CCCTTCTCTTCTTCACG
Found at i:765113 original size:26 final size:26
Alignment explanation
Indices: 765084--765167 Score: 89
Period size: 26 Copynumber: 3.2 Consensus size: 26
765074 ACAAAATAAT
*
765084 TATTTAATTATTAAAAGCAACTCAAA
1 TATTTAATTATTAAAAACAACTCAAA
*** *
765110 TATTTAATTATTTAACTATTTAA-TTAAA
1 TATTTAATTA-TTAA--AAACAACTCAAA
765138 TATTTAATTATTAAAAACAACTCAAA
1 TATTTAATTATTAAAAACAACTCAAA
765164 TATT
1 TATT
765168 CGGTTCAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
25 3 0.07
26 18 0.39
27 8 0.17
28 14 0.30
29 3 0.07
ACGTcount: A:0.48, C:0.08, G:0.01, T:0.43
Consensus pattern (26 bp):
TATTTAATTATTAAAAACAACTCAAA
Found at i:765187 original size:54 final size:52
Alignment explanation
Indices: 765078--765191 Score: 122
Period size: 54 Copynumber: 2.1 Consensus size: 52
765068 GATTCTACAA
* * * * *
765078 AATAATTATTTAATTATTAAAAGCAACTCAAATATTTAATTATTTAACTATTT
1 AATAAATATTTAATTATTAAAAACAACTCAAATATTCAATTAATTAAC-AATT
**
765131 AATTAAATATTTAATTATTAAAAACAACTCAAATATTCGGTTCAAATTAA-AATT
1 AA-TAAATATTTAATTATTAAAAACAACTCAAATATTCAATT--AATTAACAATT
765185 AATAAAT
1 AATAAAT
765192 TTAAACTTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
53 7 0.14
54 39 0.76
56 5 0.10
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.40
Consensus pattern (52 bp):
AATAAATATTTAATTATTAAAAACAACTCAAATATTCAATTAATTAACAATT
Found at i:771144 original size:66 final size:66
Alignment explanation
Indices: 771007--771144 Score: 186
Period size: 66 Copynumber: 2.1 Consensus size: 66
770997 GCAAATTGCT
* * * *
771007 CAACTTAAAGCGAAGGTAGCAGCGAAAGAAGCAGAGGCTCAAAGAAAATATGATGAACTTCAGCT
1 CAACTTAAAGCCAAGGTAGCAGCGAAAGAAGCAGAGGCTCAAAGAAAATATGACGAACTGCAACT
771072 A
66 A
* * * * * *
771073 AAACTTGAAGCCAAGGTAGCAGCGAGAGAAGTAGAGTCTCAAAGAAAGTATGACGAACTGCAACT
1 CAACTTAAAGCCAAGGTAGCAGCGAAAGAAGCAGAGGCTCAAAGAAAATATGACGAACTGCAACT
771138 A
66 A
771139 CAACTT
1 CAACTT
771145 CAAAATATGA
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.16
Consensus pattern (66 bp):
CAACTTAAAGCCAAGGTAGCAGCGAAAGAAGCAGAGGCTCAAAGAAAATATGACGAACTGCAACT
A
Found at i:777048 original size:52 final size:51
Alignment explanation
Indices: 776963--777206 Score: 213
Period size: 52 Copynumber: 4.7 Consensus size: 51
776953 ATGGAAAGGG
*
776963 GTTCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGAATTATGA
1 GTTCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGAATTATGA
* * * * * *
777014 GCTCCAATGACTAAATGTCATCGTGAGTATATGAAATCCTTTATGGATT-TAAA
1 G-TTCGATGACTAAGTGTCATCGTGAGTATATG-AATCCTTTACGAATTAT-GA
* * * *
777067 TGTTTGATGACTAAGTGTCATCGTGAGTATATGGATCCTTTACGAATAAAGA
1 -GTTCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGAATTATGA
** * * ** * *
777119 GGTTCGATGACTCTGTGTCATCGTGAGTATACGAATCCCTTGTGGATTATAA
1 -GTTCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGAATTATGA
* * *
777171 GGTCCGGTAGA-TATGTGTCATCGTGAGTATATGAAT
1 -GTTCGAT-GACTAAGTGTCATCGTGAGTATATGAAT
777207 GAAGTGAAAT
Statistics
Matches: 153, Mismatches: 34, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
51 1 0.01
52 108 0.71
53 43 0.28
54 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (51 bp):
GTTCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGAATTATGA
Found at i:777149 original size:105 final size:104
Alignment explanation
Indices: 776967--777166 Score: 274
Period size: 105 Copynumber: 1.9 Consensus size: 104
776957 AAAGGGGTTC
* *
776967 GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGAATTATGAGCTCCAATGACTAAATGT
1 GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGAATAAAGAGCTCCAATGACTAAATGT
* *
777032 CATCGTGAGTATATGAAATCCTTTATGGATTTAAATGTTT
66 CATCGTGAGTATACG-AATCCCTTATGGATTTAAATGTTT
* * * * * ***
777072 GATGACTAAGTGTCATCGTGAGTATATGGATCCTTTACGAATAAAGAGGTTCGATGACTCTGTGT
1 GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGAATAAAGAGCTCCAATGACTAAATGT
*
777137 CATCGTGAGTATACGAATCCCTTGTGGATT
66 CATCGTGAGTATACGAATCCCTTATGGATT
777167 ATAAGGTCCG
Statistics
Matches: 82, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
104 13 0.16
105 69 0.84
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.34
Consensus pattern (104 bp):
GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGAATAAAGAGCTCCAATGACTAAATGT
CATCGTGAGTATACGAATCCCTTATGGATTTAAATGTTT
Found at i:784497 original size:28 final size:29
Alignment explanation
Indices: 784462--784516 Score: 103
Period size: 28 Copynumber: 1.9 Consensus size: 29
784452 CAAAATTGTA
784462 TCTTTGTTATTTTGG-TTTGGTTTAATTG
1 TCTTTGTTATTTTGGTTTTGGTTTAATTG
784490 TCTTTGTTATTTTGGTTTTGGTTTAAT
1 TCTTTGTTATTTTGGTTTTGGTTTAAT
784517 GCGTAAGTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 15 0.58
29 11 0.42
ACGTcount: A:0.11, C:0.04, G:0.20, T:0.65
Consensus pattern (29 bp):
TCTTTGTTATTTTGGTTTTGGTTTAATTG
Found at i:786020 original size:34 final size:33
Alignment explanation
Indices: 785979--786081 Score: 107
Period size: 34 Copynumber: 3.0 Consensus size: 33
785969 AGAATATGAA
* *
785979 AAGTTAAGTAAAATGGAAGGTTAAAGATTAAGGG
1 AAGTTAAG-AAAATGGAAGGTTAAAGATCAAAGG
* *
786013 AGGTTAAGAAAGATGGAAGGTTAAAGGTCAAAGG
1 AAGTTAAGAAA-ATGGAAGGTTAAAGATCAAAGG
* * *
786047 AAGTTAAGGAAGATAGAAGGTTAAAAGATGAAAGG
1 AAGTTAA-GAAAATGGAAGGTT-AAAGATCAAAGG
786082 TTGAACATCC
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
33 3 0.05
34 41 0.72
35 13 0.23
ACGTcount: A:0.48, C:0.01, G:0.32, T:0.19
Consensus pattern (33 bp):
AAGTTAAGAAAATGGAAGGTTAAAGATCAAAGG
Found at i:794889 original size:234 final size:234
Alignment explanation
Indices: 794480--794950 Score: 933
Period size: 234 Copynumber: 2.0 Consensus size: 234
794470 TCTCGCCACA
794480 TGAGAGGTGTAAGTTTTCGGGTCACATTGTATTTATCGTGGTTACATATTTGAAACTCGTTTAAG
1 TGAGAGGTGTAAGTTTTCGGGTCACATTGTATTTATCGTGGTTACATATTTGAAACTCGTTTAAG
794545 GTGTAGGAAAAGGAATATACATCCTTTTCAAGGATTTGAAGTCTTGCCCACCAGTAGCGAATTTG
66 GTGTAGGAAAAGGAATATACATCCTTTTCAAGGATTTGAAGTCTTGCCCACCAGTAGCGAATTTG
794610 GTGACTAGTAAGGGTCTTGGTCCCCCTAAAATTATAAAAATATTTAATTGGTATTTAGTTCCTTA
131 GTGACTAGTAAGGGTCTTGGTCCCCCTAAAATTATAAAAATATTTAATTGGTATTTAGTTCCTTA
*
794675 GTTTTTGAAAACTCTGACCCTCCATATTAAGTTGCTGTT
196 GTTTTTGAAAACTCTGAACCTCCATATTAAGTTGCTGTT
794714 TGAGAGGTGTAAGTTTTCGGGTCACATTGTATTTATCGTGGTTACATATTTGAAACTCGTTTAAG
1 TGAGAGGTGTAAGTTTTCGGGTCACATTGTATTTATCGTGGTTACATATTTGAAACTCGTTTAAG
794779 GTGTAGGAAAAGGAATATACATCCTTTTCAAGGATTTGAAGTCTTGCCCACCAGTAGCGAATTTG
66 GTGTAGGAAAAGGAATATACATCCTTTTCAAGGATTTGAAGTCTTGCCCACCAGTAGCGAATTTG
794844 GTGACTAGTAAGGGTCTTGGTCCCCCTAAAATTATAAAAATATTTAATTGGTATTTAGTTCCTTA
131 GTGACTAGTAAGGGTCTTGGTCCCCCTAAAATTATAAAAATATTTAATTGGTATTTAGTTCCTTA
794909 GTTTTTGAAAACTCTGAACCTCCATATTAAGTTGCTGTT
196 GTTTTTGAAAACTCTGAACCTCCATATTAAGTTGCTGTT
794948 TGA
1 TGA
794951 CCCCTTCAAA
Statistics
Matches: 236, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
234 236 1.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.37
Consensus pattern (234 bp):
TGAGAGGTGTAAGTTTTCGGGTCACATTGTATTTATCGTGGTTACATATTTGAAACTCGTTTAAG
GTGTAGGAAAAGGAATATACATCCTTTTCAAGGATTTGAAGTCTTGCCCACCAGTAGCGAATTTG
GTGACTAGTAAGGGTCTTGGTCCCCCTAAAATTATAAAAATATTTAATTGGTATTTAGTTCCTTA
GTTTTTGAAAACTCTGAACCTCCATATTAAGTTGCTGTT
Found at i:796328 original size:40 final size:41
Alignment explanation
Indices: 796283--796375 Score: 136
Period size: 40 Copynumber: 2.3 Consensus size: 41
796273 TGTTTTTTGA
***
796283 TGAGTGATCGA-TAACTGTTTGTTTATGGTTTTTAAAGATG
1 TGAGTGATCGAGTAACTGTCAATTTATGGTTTTTAAAGATG
*
796323 TGAGTGATC-AGTAACTGTCAATTTATGGTTTTTAAATATG
1 TGAGTGATCGAGTAACTGTCAATTTATGGTTTTTAAAGATG
796363 TGAGTGATCGAGT
1 TGAGTGATCGAGT
796376 TCTGATATGA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
39 1 0.02
40 43 0.91
41 3 0.06
ACGTcount: A:0.27, C:0.06, G:0.25, T:0.42
Consensus pattern (41 bp):
TGAGTGATCGAGTAACTGTCAATTTATGGTTTTTAAAGATG
Done.