Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold143
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: 1221646
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Warning! 499 characters in sequence are not A, C, G, or T
File 6 of 8
Found at i:716649 original size:13 final size:13
Alignment explanation
Indices: 716631--716687 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
716621 ACAAAACTTA
716631 TGTATCGATACAT
1 TGTATCGATACAT
716644 TGTATCGATACAAAACTT
1 TGTATCGATAC---A--T
716662 ATGTATCGATACAT
1 -TGTATCGATACAT
716676 TGTATCGATACA
1 TGTATCGATACA
716688 ACACTTATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
14 1 0.03
16 2 0.05
18 1 0.03
19 11 0.29
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:718684 original size:11 final size:11
Alignment explanation
Indices: 718668--718697 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
718658 GCCGTTATAA
718668 GCTTGTTTAGT
1 GCTTGTTTAGT
718679 GCTTGTTTAGT
1 GCTTGTTTAGT
*
718690 TCTTGTTT
1 GCTTGTTT
718698 CAATGCATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.07, C:0.10, G:0.23, T:0.60
Consensus pattern (11 bp):
GCTTGTTTAGT
Found at i:718797 original size:13 final size:13
Alignment explanation
Indices: 718779--718803 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
718769 TGCAAGCCAA
718779 TGTATCGATACAC
1 TGTATCGATACAC
718792 TGTATCGATACA
1 TGTATCGATACA
718804 TGAATAGTGA
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:718983 original size:13 final size:13
Alignment explanation
Indices: 718965--718989 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
718955 CTGCCAGTTT
718965 ATGTATCGATACA
1 ATGTATCGATACA
718978 ATGTATCGATAC
1 ATGTATCGATAC
718990 TAAGCAAAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:721984 original size:20 final size:20
Alignment explanation
Indices: 721934--721994 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
721924 TCAAAAACCC
721934 AGAATGTATCGATACAATTGTA
1 AGAATGTATCGATAC-ATT-TA
*
721956 AGCATGTATCGATACATTT-
1 AGAATGTATCGATACATTTA
*
721975 AGTAATGTATCAATACATTT
1 AG-AATGTATCGATACATTT
721995 CCTTGGCAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.06
20 16 0.46
21 3 0.09
22 14 0.40
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (20 bp):
AGAATGTATCGATACATTTA
Found at i:722849 original size:20 final size:20
Alignment explanation
Indices: 722824--722910 Score: 95
Period size: 20 Copynumber: 4.3 Consensus size: 20
722814 GGTTCTTTCT
722824 TTTTTGTTTTTTTTGTTTTG
1 TTTTTGTTTTTTTTGTTTTG
*
722844 TTTTTGTTTTTTTTGCTTTTA
1 TTTTTGTTTTTTTTG-TTTTG
* *
722865 TTTTTATTTTTTTGGGTTTTG
1 TTTTTGTTTTTTT-TGTTTTG
* * *
722886 -CTTTGTTTTTTTTCTTTTT
1 TTTTTGTTTTTTTTGTTTTG
722905 TTTTTG
1 TTTTTG
722911 GGTCAAAAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
19 4 0.07
20 29 0.54
21 20 0.37
22 1 0.02
ACGTcount: A:0.02, C:0.03, G:0.13, T:0.82
Consensus pattern (20 bp):
TTTTTGTTTTTTTTGTTTTG
Found at i:722863 original size:6 final size:5
Alignment explanation
Indices: 722825--722907 Score: 52
Period size: 5 Copynumber: 16.8 Consensus size: 5
722815 GTTCTTTCTT
*
722825 TTTTG TTTT- TTTTG TTTTG TTTTTG TTTT- TTTTG CTTTTA TTTT- TATTT-
1 TTTTG TTTTG TTTTG TTTTG -TTTTG TTTTG TTTTG -TTTTG TTTTG T-TTTG
* *
722874 TTTTGGG TTTTG CTTTG TTTT- TTTTC TTTT- TTTT
1 TTTT--G TTTTG TTTTG TTTTG TTTTG TTTTG TTTT
722908 TTGGGTCAAA
Statistics
Matches: 66, Mismatches: 3, Indels: 19
0.75 0.03 0.22
Matches are distributed among these distances:
4 20 0.30
5 33 0.50
6 9 0.14
7 4 0.06
ACGTcount: A:0.02, C:0.04, G:0.12, T:0.82
Consensus pattern (5 bp):
TTTTG
Found at i:722869 original size:41 final size:40
Alignment explanation
Indices: 722816--722910 Score: 113
Period size: 41 Copynumber: 2.4 Consensus size: 40
722806 CTTAAGCTGG
* *
722816 TTCTTTCT-TTTTTGTTTTTTT-TGTTTTGTTTTTGTTTTTT
1 TTCTTT-TATTTTTGTTTTTTTGGGTTTTG-CTTTGTTTTTT
*
722856 TTGCTTTTATTTTTATTTTTTTGGGTTTTGCTTTGTTTTTT
1 TT-CTTTTATTTTTGTTTTTTTGGGTTTTGCTTTGTTTTTT
*
722897 TTCTTTTTTTTTTG
1 TTCTTTTATTTTTG
722911 GGTCAAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
40 13 0.28
41 28 0.60
42 6 0.13
ACGTcount: A:0.02, C:0.05, G:0.12, T:0.81
Consensus pattern (40 bp):
TTCTTTTATTTTTGTTTTTTTGGGTTTTGCTTTGTTTTTT
Found at i:725652 original size:165 final size:163
Alignment explanation
Indices: 725481--726039 Score: 508
Period size: 165 Copynumber: 3.4 Consensus size: 163
725471 TTCTTCGTCG
* * * *
725481 TAAATTTTCTCGAGAGGA-TTTTCATGGGTTTAAAATTTTGAAAATTCATCAAATATTATTATTT
1 TAAATTTT-TCG-GGGGACTTTTC-TTGGTTTATAATTTTTAAAATTCATCAAATATTATTATTT
* *
725545 ATTTCATATTAAATCAGTTTTCAAAAATTCATTCATTTTCATAAGTTTTTTATTTTTT-CTTGAA
63 A-TTCATATTAAATCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTAATTTTTTCCTTGAA
** * **
725609 ATTTTTC-TTTTTTCGAAATACGTTA-TTTTCTACTTCA
127 A-TTCACATTTTTTCGAAATACG-GAGTTTTCTACACCA
* * *
725646 TAAATTTTTTCGGGGGGATTTTTCTTGGTTTATAATTTTTAAAATTCTTCAAATATTATCATTTG
1 TAAA-TTTTTC-GGGGGACTTTTCTTGGTTTATAATTTTTAAAATTCATCAAATATTATTATTT-
* * *
725711 A-TCATATTAGATCAG-TTTCAAAAAATTCCTTCATTTACATGAGTTTTTAATTTTTTCCTTGAA
63 ATTCATATTAAATCAGTTTTC-AAAAATTCATTCATTTTCATGAGTTTTTAATTTTTTCCTTGAA
*
725774 ATTCACATTTTTTCGAAATACGGAGTTTTCTACACCG
127 ATTCACATTTTTTCGAAATACGGAGTTTTCTACACCA
* * *
725811 TCAATATTTTCGGGGAGACTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATCATTATTTA
1 TAAAT-TTTTCGGGG-GACTTTTCTTGGTTTATAATTTTTAAAATTCATCAAATATTATTATTT-
* * * * * * **
725876 ATTCATAGTAAATCAGTTTTAAAAAATTAATTTACTTTCATGAGTTTTGGAA-TTTTTCAATGAA
63 ATTCATATTAAATCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTT-TAATTTTTTCCTTGAA
* * * * *
725940 ATTCCCATTTTCCTTAG-AA-ACCGAGTTTTCTTCTCCA
127 ATTCACATTTT--TTCGAAATACGGAGTTTTCTACACCA
* * * * * * *
725977 AAAATTTTTGGGGAAGGATTTTTCTCGGCTTAAAATTTTTAAAATTCAT-ATAATATTTTTATT
1 TAAATTTTTCGGG--GGACTTTTCTTGGTTTATAATTTTTAAAATTCATCA-AATATTATTATT
726040 AAACTCTCAT
Statistics
Matches: 325, Mismatches: 51, Indels: 35
0.79 0.12 0.09
Matches are distributed among these distances:
163 4 0.01
164 54 0.17
165 136 0.42
166 120 0.37
167 8 0.02
168 3 0.01
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (163 bp):
TAAATTTTTCGGGGGACTTTTCTTGGTTTATAATTTTTAAAATTCATCAAATATTATTATTTATT
CATATTAAATCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTAATTTTTTCCTTGAAATTC
ACATTTTTTCGAAATACGGAGTTTTCTACACCA
Found at i:726016 original size:166 final size:160
Alignment explanation
Indices: 725494--726039 Score: 494
Period size: 166 Copynumber: 3.3 Consensus size: 160
725484 ATTTTCTCGA
* * *
725494 GAGGA-TTTTCATGGGTTTAAAATTTTGAAAATTCATCAAATATTATTATTTATTTCATATTAAA
1 GAGGATTTTTC-TTGGTTTAAAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAA
* * * **
725558 TCAGTTTTCAAAAATTCATTCATTTTCATAAGTTTTTTATTTTTTCTTGAAATTTTTC-TTTTTT
65 TCAGTTTTAAAAAATTCATTCA-TTTCATGAG-TTTTTAATTTTTCTTGAAA-TTCACATTTTTT
* * *
725622 CGAAATACGTTA-TTTTCTACTTCATAAATTTTTTCGGG
127 CGAAA-CCG--AGTTTTCTACTCCA-AAAATTTTT-GGG
* * * * *
725660 G-GGATTTTTCTTGGTTTATAATTTTTAAAATTCTTCAAATATTATCATTTGA-TCATATTAGAT
1 GAGGATTTTTCTTGGTTTAAAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAAT
* *
725723 CAGTTTCAAAAAATTCCTTCATTTACATGAGTTTTTAATTTTTTCCTTGAAATTCACATTTTTTC
66 CAGTTTTAAAAAATTCATTCATTT-CATGAGTTTTTAA-TTTTT-CTTGAAATTCACATTTTTTC
* * * * *
725788 GAAATACGGAGTTTTCTACACCGTCAATATTTTCGGG
128 G-AA-ACCGAGTTTTCTACTCC--AAAAATTTTTGGG
* ** * *
725825 GA-GACTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATCATTATTTAATTCATAGTAAAT
1 GAGGATTTTTCTTGGTTTAAAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAAT
* * * * *
725889 CAGTTTTAAAAAATTAATTTACTTTCATGAGTTTTGGAATTTTTCAATGAAATTCCCATTTTCCT
66 CAGTTTTAAAAAATTCATTCA-TTTCATGAGTTTT-TAATTTTTC-TTGAAATTCACATTTT--T
* *
725954 TAGAAACCGAGTTTTCTTCTCCAAAAATTTTTGGG
126 TCGAAACCGAGTTTTCTACTCCAAAAATTTTTGGG
* * *
725989 GAAGGATTTTTCTCGGCTTAAAATTTTTAAAATTCAT-ATAATATTTTTATT
1 G-AGGATTTTTCTTGGTTTAAAATTTTTAAAATTCATCA-AATATTATTATT
726040 AAACTCTCAT
Statistics
Matches: 308, Mismatches: 52, Indels: 40
0.77 0.13 0.10
Matches are distributed among these distances:
163 9 0.03
164 53 0.17
165 113 0.37
166 122 0.40
167 8 0.03
168 3 0.01
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (160 bp):
GAGGATTTTTCTTGGTTTAAAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAAT
CAGTTTTAAAAAATTCATTCATTTCATGAGTTTTTAATTTTTCTTGAAATTCACATTTTTTCGAA
ACCGAGTTTTCTACTCCAAAAATTTTTGGG
Found at i:726239 original size:14 final size:15
Alignment explanation
Indices: 726220--726249 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
726210 AAATTTTACC
726220 TTAATTTTTA-AATT
1 TTAATTTTTACAATT
726234 TTAATTTTTACAATT
1 TTAATTTTTACAATT
726249 T
1 T
726250 AGTCCTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (15 bp):
TTAATTTTTACAATT
Found at i:726564 original size:12 final size:12
Alignment explanation
Indices: 726546--726578 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
726536 TGAGAAACTT
726546 GGAGAAAAAAATA
1 GGAGAAAAAAA-A
726559 -GAGAAAAAAAA
1 GGAGAAAAAAAA
726570 GGAGAAAAA
1 GGAGAAAAA
726579 GAAAAATGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 1 0.05
12 18 0.95
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.03
Consensus pattern (12 bp):
GGAGAAAAAAAA
Found at i:728543 original size:158 final size:154
Alignment explanation
Indices: 727939--728642 Score: 417
Period size: 154 Copynumber: 4.5 Consensus size: 154
727929 CATTCCCTTA
* * *** * ** * * * *
727939 CATCTATAAATCCTTTTTAAGCCCTTTAGGGGTATTTAGTACTTTTATGTCGAAGGTATCTCCTA
1 CATCTAT-AATCTTTTTTAAGTCCTTTAGGGGTATCGGGCACTGCTACGTCAAAGATATCCCCTA
* ** * * * * * * *
728004 GGGGCATTTTTATAATTTCTTATAA-CAGAGTCTTAGGTTATCACTTG-GTTCGCTTTTATGCCG
65 AGGGCATTTTGGTAATTT-TTAAAATCA-AGTCCTAGGTTATCAC-CGAGTCCGATTTAATGTCG
* *
728067 AAAATGGGTATTTAGGATAAG-TTCACCC
127 AAGATGGGTATTTAGGAT-AGCTTCATCC
* * ** * * * **
728095 CATTTAT-ATCTTTTTCAAGTTTTTTAGGGGTATTGGGTACT-TTCACGTCGTAGATATCCCCT-
1 CATCTATAATCTTTTTTAAGTCCTTTAGGGGTATCGGGCACTGCT-ACGTCAAAGATATCCCCTA
* * ** * * * * * * *
728157 AGACGCTTTTTCTTAATTTTTTAAAA-CTAAGGCTTAGGTTGTCACCGAGTTCGCTTTTACGTCG
65 AG-GGCATTTTGGTAA-TTTTTAAAATC-AAGTCCTAGGTTATCACCGAGTCCGATTTAATGTCG
* *
728221 AAGGTGGGTA-TTAGGATAGGTTCATCC
127 AAGATGGGTATTTAGGATAGCTTCATCC
** * * ** * * ** *
728248 TTTCTATGATC-CTTTTAAGTCCTTTAGGGGTGCCGGGTAATTTTATGTCAAAG-TATCCCCTAA
1 CATCTATAATCTTTTTTAAGTCCTTTAGGGGTATCGGGCACTGCTACGTCAAAGATATCCCCTAA
* ** * * *
728311 AGGCATTTTTATAATTTTCTAGAA-CGAAGTCCTAGGTTATCACTGGGTCCGATTTAATGTCGAA
66 GGGCATTTTGGTAATTTT-TAAAATC-AAGTCCTAGGTTATCACCGAGTCCGATTTAATGTCGAA
* * * *
728375 GGTGTGTATTTAGGATAGGTTCATTC
129 GATGGGTATTTAGGATAGCTTCATCC
* * *
728401 CATTTTGTAAT-TCTTTTTAAGTCCTTT-GGGGATATCGGGCACTGCTACGTCAAAGATATCTCC
1 CA-TCTATAATCT-TTTTTAAGTCCTTTAGGGG-TATCGGGCACTGCTACGTCAAAGATATCCCC
* * * *
728464 TAGGGGCATTTTGGTAAGTTTTTAAAATCAAGTCCTAGGTTGCATCACCGAGTCTGTTTTTATGT
63 TAAGGGCATTTTGGTAA-TTTTTAAAATCAAGTCCTAGGTT--ATCACCGAGTCCGATTTAATGT
*
728529 CGAAGATGGGTATTTAGGATAGCTTTATCC
125 CGAAGATGGGTATTTAGGATAGCTTCATCC
* * ** * *
728559 CATCTATAATCTTTTTTAAGTCCTTTAGGGGTATTGGGTACTTTTACGTCGAAGGTATCCCCTAA
1 CATCTATAATCTTTTTTAAGTCCTTTAGGGGTATCGGGCACTGCTACGTCAAAGATATCCCCTAA
* *
728624 GGGTATTTTTGTAATTTTT
66 GGGCATTTTGGTAATTTTT
728643 CATGAACTGA
Statistics
Matches: 427, Mismatches: 99, Indels: 44
0.75 0.17 0.08
Matches are distributed among these distances:
151 4 0.01
152 60 0.14
153 66 0.15
154 106 0.25
155 33 0.08
156 46 0.11
157 63 0.15
158 49 0.11
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.40
Consensus pattern (154 bp):
CATCTATAATCTTTTTTAAGTCCTTTAGGGGTATCGGGCACTGCTACGTCAAAGATATCCCCTAA
GGGCATTTTGGTAATTTTTAAAATCAAGTCCTAGGTTATCACCGAGTCCGATTTAATGTCGAAGA
TGGGTATTTAGGATAGCTTCATCC
Found at i:732071 original size:79 final size:79
Alignment explanation
Indices: 731935--732210 Score: 250
Period size: 79 Copynumber: 3.5 Consensus size: 79
731925 TTGATATTTT
* * * * * * * *
731935 AGTATCCCTTTAGAGATAGTGGGGTTAGAGTATCCCCGAGGTGAAAATTTTATTATTTTGGAAGT
1 AGTATCCCCTCAGAAATGGTGGGGTTGGAGTATCCCCTAGATGAAAATTTTAATATTTTGGAAGT
* *
732000 CAAAACGGGGTTGG
66 AAAAATGGGGTTGG
* *
732014 AGTATCCCCTC-GAAAATGGTGGGGCTGGAGTATCCTCTAGATGAAAATTTTAATATTTTGGAAG
1 AGTATCCCCTCAG-AAATGGTGGGGTTGGAGTATCCCCTAGATGAAAATTTTAATATTTTGGAAG
* *
732078 TAAAAATAGGGCTGG
65 TAAAAATGGGGTTGG
* ** * * * *
732093 AGTATCCCTTCAGAAATGGTAAGGTTGAAGTATCCCCTAAGATGAAAAAATTTAATGTTTTAGAA
1 AGTATCCCCTCAGAAATGGTGGGGTTGGAGTATCCCCT-AGATG-AAAATTTTAATATTTTGGAA
*
732158 -AAAAAATGGGGTTGG
64 GTAAAAATGGGGTTGG
* * * * ** *
732173 AGTTTTCCATCAGAATTTATGGGGTTAGAGTATCCCCT
1 AGTATCCCCTCAGAAATGGTGGGGTTGGAGTATCCCCT
732211 TAGAAACAAT
Statistics
Matches: 157, Mismatches: 36, Indels: 7
0.79 0.18 0.04
Matches are distributed among these distances:
78 1 0.01
79 93 0.59
80 46 0.29
81 17 0.11
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (79 bp):
AGTATCCCCTCAGAAATGGTGGGGTTGGAGTATCCCCTAGATGAAAATTTTAATATTTTGGAAGT
AAAAATGGGGTTGG
Found at i:732227 original size:108 final size:109
Alignment explanation
Indices: 732115--732317 Score: 257
Period size: 109 Copynumber: 1.9 Consensus size: 109
732105 GAAATGGTAA
* * * * * *
732115 GGTTGAAGTATCCCCTA-AGATGAAAAAATTTAATGTTTTAGAA-AAAAAATGGGGTTGGAGTTT
1 GGTTGAAGCAT-CCCTAGAGATGAAAAAATTCAATGTTTTAGAAGAAAAAACGGGATTGAAGTAT
*
732178 TCCATCAGAATTTATGGGGTTAGAGTATCCCCTTAGAAACAATGG
65 TCCATCAGAATTGATGGGGTTAGAGTATCCCCTTAGAAACAATGG
* * *
732223 GGTTGGAGCATCCCTAGAGATGAAGAAATTCAATGTTTTAGAAGTAAAAACGGGATTGAAGTATT
1 GGTTGAAGCATCCCTAGAGATGAAAAAATTCAATGTTTTAGAAGAAAAAACGGGATTGAAGTATT
* ** *
732288 CCCTTGGAATTGATGGGGTTGGAGTATCCC
66 CCATCAGAATTGATGGGGTTAGAGTATCCC
732318 AAAGATGAAG
Statistics
Matches: 79, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
107 5 0.06
108 33 0.42
109 41 0.52
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.30
Consensus pattern (109 bp):
GGTTGAAGCATCCCTAGAGATGAAAAAATTCAATGTTTTAGAAGAAAAAACGGGATTGAAGTATT
CCATCAGAATTGATGGGGTTAGAGTATCCCCTTAGAAACAATGG
Found at i:732348 original size:80 final size:79
Alignment explanation
Indices: 732219--732513 Score: 317
Period size: 80 Copynumber: 3.7 Consensus size: 79
732209 CTTAGAAACA
* *
732219 ATGGGGTTGGAGCATCCCTAGAGATGAAGAAATTCAATGTTTTAGAAGTAAAAACGGGATTGAAG
1 ATGGGGTTGGAGTATCCC-AAAGATGAAGAAATTCAATGTTTTAGAAGTAAAAACGGG-TTGAAG
732284 TATTCCCTTGGAATTG
64 TATTCCCTTGGAATTG
* ** *
732300 ATGGGGTTGGAGTATCCCAAAGATGAAGAAATTCAATGTTTTAAAAGTAAAAATTAGGTTGGAGT
1 ATGGGGTTGGAGTATCCCAAAGATGAAGAAATTCAATGTTTTAGAAGTAAAAA-CGGGTTGAAGT
* *
732365 ATCCCCTTGGAATTT
65 ATTCCCTTGGAATTG
* * ** **
732380 ATGGGGTTGGAGTATCCCCTAAGATGAA-AATTTTGATGTTTTAGAAGTAATGACGGTGTTAGAA
1 ATGGGGTTGGAGTAT-CCCAAAGATGAAGAAATTCAATGTTTTAGAAGTAAAAACGG-GTT-GAA
732444 -TATTCCCTTGGAATTG
63 GTATTCCCTTGGAATTG
* * * * * *
732460 ATGGGGTTGGAATATCCCCAATGGTGAA-AAATTCGATGCTTTTGGAAGAAAAAA
1 ATGGGGTTGGAGTAT-CCCAAAGATGAAGAAATTCAATG-TTTTAGAAGTAAAAA
732514 TTTACAAATT
Statistics
Matches: 179, Mismatches: 30, Indels: 10
0.82 0.14 0.05
Matches are distributed among these distances:
79 1 0.01
80 135 0.75
81 43 0.24
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.31
Consensus pattern (79 bp):
ATGGGGTTGGAGTATCCCAAAGATGAAGAAATTCAATGTTTTAGAAGTAAAAACGGGTTGAAGTA
TTCCCTTGGAATTG
Found at i:736147 original size:155 final size:154
Alignment explanation
Indices: 735955--736399 Score: 568
Period size: 156 Copynumber: 2.9 Consensus size: 154
735945 ACCCCATACG
*
735955 CCTAAAGGACTTAAAAAGGATTATAAAATGGATGAACCTATCCTAAATATCCACCTTTGGCATAA
1 CCTAAAGGACTTAAAAAGGATTATAAAATGGATGAACCTATCCTAAATAACCACCTTTGGCATAA
* * * *
736020 AACCGGACTCGATGATAACCTATGACTCGATTTTAAAAAATTACCAAAATGCTCCCAGGGGATAC
66 AAGCGGACCCGGTGATAACCTATGACTCGATTTTAAAAAATTACAAAAATGC-CCCAGGGGATAC
* *
736085 CTTCAACATAGAAGTTCCT-GAACC
130 CTTCAACATAAAAGTGCCTGGAACC
* * *
736109 CCTAAAGAACTTAAAAAGGATTATAAAATAGGATGAACCTATCCTAAATACCCACCTTCGGCATA
1 CCTAAAGGACTTAAAAAGGATTATAAAAT-GGATGAACCTATCCTAAATAACCACCTTTGGCATA
* * * * * * **
736174 AGAGCGGACCCGGTGACAGCCTAGGCCTCGATTTTAAAAAATTACAAAAATACCCGTGGAGGATA
65 AAAGCGGACCCGGTGATAACCTATGACTCGATTTTAAAAAATTACAAAAATGCCCCAGG-GGATA
* *
736239 CCTTCGACATAAAAGTGCCTGGTACC
129 CCTTCAACATAAAAGTGCCTGGAACC
*** * *
736265 CCTAAAGGACTTAAAAAGGATTATAAAATGGGATGATTTTATTCTAAATAACCACCTTTAGCATA
1 CCTAAAGGACTTAAAAAGGATTATAAAAT-GGATGAACCTATCCTAAATAACCACCTTTGGCATA
** * * *
736330 AAAGCAAACCCGGTGATAACCTATAACTCGATTCTAAAAAATTACAAAAATGCCTCTAGGGGATA
65 AAAGCGGACCCGGTGATAACCTATGACTCGATTTTAAAAAATTACAAAAATGCC-CCAGGGGATA
736395 CCTTC
129 CCTTC
736400 GACGTGAAAG
Statistics
Matches: 247, Mismatches: 40, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
154 32 0.13
155 98 0.40
156 114 0.46
157 3 0.01
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (154 bp):
CCTAAAGGACTTAAAAAGGATTATAAAATGGATGAACCTATCCTAAATAACCACCTTTGGCATAA
AAGCGGACCCGGTGATAACCTATGACTCGATTTTAAAAAATTACAAAAATGCCCCAGGGGATACC
TTCAACATAAAAGTGCCTGGAACC
Found at i:739713 original size:84 final size:83
Alignment explanation
Indices: 739619--739919 Score: 311
Period size: 84 Copynumber: 3.6 Consensus size: 83
739609 TAAAATCGAC
* * * **
739619 AAGTTAACAAAAGATAAAGAAATTTACTTGGGACTAAGCCGACAGGTAAATAAGGGATGAAAGGT
1 AAGTCAACAAAGGATAAAGGAATTTACCAGGGACTAAGCCGACAGGTAAA-AAGGGATGAAAGGT
*
739684 TGACCAGGGCTGAACCGAT
65 TGACCAAGGCTGAACCGAT
* * * * * * * *
739703 AAGTCAACAAAGGGTAAGGGAGTTTACCAGGGACTGAGTCGACAGGTAAACAGAGATGAAAAGTT
1 AAGTCAACAAAGGATAAAGGAATTTACCAGGGACTAAGCCGACAGGTAAAAAGGGATGAAAGGTT
*
739768 GACCAAAGG-TAAACCGAT
66 GACC-AAGGCTGAACCGAT
* * ** * * * *
739786 AAGTCAACAAAGGATAAAGGAGTTCAAGAGGGACTGAGCCGATAGGTAAACAAGGAATAAAAGGT
1 AAGTCAACAAAGGATAAAGGAATTTACCAGGGACTAAGCCGACAGGTAAA-AAGGGATGAAAGGT
739851 TGACCAAGGCTGAACCGAT
65 TGACCAAGGCTGAACCGAT
* *
739870 AAGTCAACAAAGGATGAAAGG-ATTTACCTA-GGACTAAGTCAACAGGTAAA
1 AAGTCAACAAAGGAT-AAAGGAATTTACC-AGGGACTAAGCCGACAGGTAAA
739920 CAAAGGATAA
Statistics
Matches: 176, Mismatches: 36, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
83 71 0.40
84 99 0.56
85 6 0.03
ACGTcount: A:0.43, C:0.14, G:0.27, T:0.17
Consensus pattern (83 bp):
AAGTCAACAAAGGATAAAGGAATTTACCAGGGACTAAGCCGACAGGTAAAAAGGGATGAAAGGTT
GACCAAGGCTGAACCGAT
Found at i:740052 original size:42 final size:43
Alignment explanation
Indices: 740005--740119 Score: 153
Period size: 42 Copynumber: 2.7 Consensus size: 43
739995 ACGTAAAAAT
*
740005 GTTTGACTAGGGCA-ACACCATCGCGTCAAACGGAGTG-AAAGA
1 GTTTGACTAGGGCACA-ACCATCGCATCAAACGGAGTGAAAAGA
*
740047 GTTTGACTAGGGCACAATCATCGCATCAAACGGAGTGAAAAGA
1 GTTTGACTAGGGCACAACCATCGCATCAAACGGAGTGAAAAGA
* ***
740090 GTTTGACCAGGGTGGAACCATCGCATCAAA
1 GTTTGACTAGGGCACAACCATCGCATCAAA
740120 ACAATAGATG
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
42 33 0.52
43 31 0.48
ACGTcount: A:0.34, C:0.21, G:0.27, T:0.18
Consensus pattern (43 bp):
GTTTGACTAGGGCACAACCATCGCATCAAACGGAGTGAAAAGA
Found at i:740227 original size:41 final size:41
Alignment explanation
Indices: 740180--741009 Score: 402
Period size: 41 Copynumber: 20.4 Consensus size: 41
740170 GGTGAGTTAA
** *
740180 GGCGAAATTGATAAAGCCAATGAGTTAGAAGGGTTGACTAG
1 GGCGAAACCGATAAAGCCAACGAGTTAGAAGGGTTGACTAG
* * * * * * * *
740221 GGCGAAAGCGTTAAAGTCAACCAATTAAAAAGGTTGGCTAG
1 GGCGAAACCGATAAAGCCAACGAGTTAGAAGGGTTGACTAG
* * * * * * *
740262 AGTGAAATCGATAGAGCCAAAG-GTTAGAAAGGTTGACTAA
1 GGCGAAACCGATAAAGCCAACGAGTTAGAAGGGTTGACTAG
* * * * * * * *
740302 GGCGAAACCAATAAAGTCAACCAATTA-AAAGGTTGGCCAA
1 GGCGAAACCGATAAAGCCAACGAGTTAGAAGGGTTGACTAG
* * * * *
740342 GGCAAAACCGAAAAAGCTAAAGGGTTAGAAGGGTTGACTAG
1 GGCGAAACCGATAAAGCCAACGAGTTAGAAGGGTTGACTAG
** * * * * * * * * * *
740383 GATGAAACCAATAAAGTCAACTAATTAAAAGAGATGGCCAA
1 GGCGAAACCGATAAAGCCAACGAGTTAGAAGGGTTGACTAG
* *
740424 GGCGAAACCGATAAAGCCAACAAGTTAAAAGGGTTGACTAG
1 GGCGAAACCGATAAAGCCAACGAGTTAGAAGGGTTGACTAG
* * * * * * *
740465 GGCTAAACTGATAAAGTCAACCAATTAAAAGGGTT-AGCT-T
1 GGCGAAACCGATAAAGCCAACGAGTTAGAAGGGTTGA-CTAG
* * *
740505 GGTGAAATCGATAAAGCCAACG-GATTAGAAGGGTTGACCAG
1 GGCGAAACCGATAAAGCCAACGAG-TTAGAAGGGTTGACTAG
** * * * * * * **
740546 GATGAAATCGATAAGGTCAACCAATT-GAAAGGTTGGTTAG
1 GGCGAAACCGATAAAGCCAACGAGTTAGAAGGGTTGACTAG
* * * *
740586 GGCAAAACCAATAAAGCCAAC-AGTTTAGAAAGGTTGATTAG
1 GGCGAAACCGATAAAGCCAACGAG-TTAGAAGGGTTGACTAG
* * * * * *
740627 GGCAAAACTGATAAAGTCAACGAATTAGAAGGGTT-AGCCAA
1 GGCGAAACCGATAAAGCCAACGAGTTAGAAGGGTTGA-CTAG
* * * *
740668 GGTGAAACAGATAAAGCCAAACGGGTTAGAAGGGTTGACCAG
1 GGCGAAACCGATAAAGCC-AACGAGTTAGAAGGGTTGACTAG
** * * * * * *
740710 GGC-AAAATGATAAAGTCAACTAATTAAAAGGGTTGGCCAG
1 GGCGAAACCGATAAAGCCAACGAGTTAGAAGGGTTGACTAG
* * * *
740750 GGCAAAACCGATAAAGCCAACAAGTTAAAAGGGTTGACTTG
1 GGCGAAACCGATAAAGCCAACGAGTTAGAAGGGTTGACTAG
* ** * * * * *
740791 AGCGAAAGTGATAAAGTCAACCAATT-GAAAGGTTGGCTAG
1 GGCGAAACCGATAAAGCCAACGAGTTAGAAGGGTTGACTAG
* * *
740831 GGTGAAACTGATAAAGCCAACGGGTTAGAAGGGTTGACTAG
1 GGCGAAACCGATAAAGCCAACGAGTTAGAAGGGTTGACTAG
* * * * * * *
740872 GGCAAAACCAATAGAGTCAAAGGGTTAGAAGGATTGACTAG
1 GGCGAAACCGATAAAGCCAACGAGTTAGAAGGGTTGACTAG
** ** ** * * *
740913 GGCGAAACTAATAAAATCAATAAATTAAAAGGGTTGGCTAG
1 GGCGAAACCGATAAAGCCAACGAGTTAGAAGGGTTGACTAG
* * * * * * *
740954 GGCAAAATCGATAAAGCCAACGGGTTAAAAAGGTTGACCAA
1 GGCGAAACCGATAAAGCCAACGAGTTAGAAGGGTTGACTAG
* *
740995 AGCGAAACTGATAAA
1 GGCGAAACCGATAAA
741010 ATCAACCAAT
Statistics
Matches: 577, Mismatches: 197, Indels: 30
0.72 0.25 0.04
Matches are distributed among these distances:
39 1 0.00
40 162 0.28
41 392 0.68
42 21 0.04
43 1 0.00
ACGTcount: A:0.42, C:0.14, G:0.26, T:0.18
Consensus pattern (41 bp):
GGCGAAACCGATAAAGCCAACGAGTTAGAAGGGTTGACTAG
Found at i:740288 original size:81 final size:80
Alignment explanation
Indices: 740124--740891 Score: 623
Period size: 81 Copynumber: 9.4 Consensus size: 80
740114 ATCAAAACAA
* * * * *
740124 TAGATGGGTTGACCAAGGCAAAACCGATAAAGTCAACCAATTAAAAGG-TGAGTTA-AGGCGAAA
1 TAGAAGGGTTGACTAGGGCGAAACCGATAAAGTCAACCAATTAAAAGGTTG-GCTAGA-GCGAAA
** *
740187 TTGATAAAGCCAATGAGT
64 CCGATAAAGCCAAAG-GT
* * * *
740205 TAGAAGGGTTGACTAGGGCGAAAGCGTTAAAGTCAACCAATTAAAAAGGTTGGCTAGAGTGAAAT
1 TAGAAGGGTTGACTAGGGCGAAACCGATAAAGTCAACCAATT-AAAAGGTTGGCTAGAGCGAAAC
*
740270 CGATAGAGCCAAAGGT
65 CGATAAAGCCAAAGGT
* * * * *
740286 TAGAAAGGTTGACTAAGGCGAAACCAATAAAGTCAACCAATTAAAAGGTTGGCCA-AGGCAAAAC
1 TAGAAGGGTTGACTAGGGCGAAACCGATAAAGTCAACCAATTAAAAGGTTGGCTAGA-GCGAAAC
* *
740350 CGAAAAAGCTAAAGGGT
65 CGATAAAGCCAAA-GGT
** * * * *
740367 TAGAAGGGTTGACTAGGATGAAACCAATAAAGTCAACTAATTAAAAGAGATGGCCA-AGGCGAAA
1 TAGAAGGGTTGACTAGGGCGAAACCGATAAAGTCAACCAATTAAAAG-GTTGGCTAGA-GCGAAA
*
740431 CCGATAAAGCCAACAAGT
64 CCGATAAAGCCAA-AGGT
* * * * * * *
740449 TAAAAGGGTTGACTAGGGCTAAACTGATAAAGTCAACCAATTAAAAGGGTTAGCTTG-GTGAAAT
1 TAGAAGGGTTGACTAGGGCGAAACCGATAAAGTCAACCAATTAAAA-GGTTGGCTAGAGCGAAAC
*
740513 CGATAAAGCCAACGGAT
65 CGATAAAGCCAAAGG-T
* ** * * * * * *
740530 TAGAAGGGTTGACCAGGATGAAATCGATAAGGTCAACCAATTGAAAGGTTGGTTAGGGCAAAACC
1 TAGAAGGGTTGACTAGGGCGAAACCGATAAAGTCAACCAATTAAAAGGTTGGCTAGAGCGAAACC
* *
740595 AATAAAGCCAACAGTT
66 GATAAAGCCAA-AGGT
* * * * * * * * *
740611 TAGAAAGGTTGATTAGGGCAAAACTGATAAAGTCAACGAATTAGAAGGGTTAGCCA-AGGTGAAA
1 TAGAAGGGTTGACTAGGGCGAAACCGATAAAGTCAACCAATTA-AAAGGTTGGCTAGA-GCGAAA
*
740675 CAGATAAAGCCAAACGGGT
64 CCGATAAAGCCAAA--GGT
* ** * * * *
740694 TAGAAGGGTTGACCAGGGC-AAAATGATAAAGTCAACTAATTAAAAGGGTTGGCCAGGGCAAAAC
1 TAGAAGGGTTGACTAGGGCGAAACCGATAAAGTCAACCAATTAAAA-GGTTGGCTAGAGCGAAAC
*
740758 CGATAAAGCCAACAAGT
65 CGATAAAGCCAA-AGGT
* * * ** * * * *
740775 TAAAAGGGTTGACTTGAGCGAAAGTGATAAAGTCAACCAATTGAAAGGTTGGCTAGGGTGAAACT
1 TAGAAGGGTTGACTAGGGCGAAACCGATAAAGTCAACCAATTAAAAGGTTGGCTAGAGCGAAACC
*
740840 GATAAAGCCAACGGGT
66 GATAAAGCCAA-AGGT
* * *
740856 TAGAAGGGTTGACTAGGGCAAAACCAATAGAGTCAA
1 TAGAAGGGTTGACTAGGGCGAAACCGATAAAGTCAA
740892 AGGGTTAGAA
Statistics
Matches: 547, Mismatches: 120, Indels: 40
0.77 0.17 0.06
Matches are distributed among these distances:
79 1 0.00
80 34 0.06
81 300 0.55
82 188 0.34
83 24 0.04
ACGTcount: A:0.41, C:0.14, G:0.26, T:0.18
Consensus pattern (80 bp):
TAGAAGGGTTGACTAGGGCGAAACCGATAAAGTCAACCAATTAAAAGGTTGGCTAGAGCGAAACC
GATAAAGCCAAAGGT
Found at i:740567 original size:244 final size:241
Alignment explanation
Indices: 740124--740891 Score: 789
Period size: 244 Copynumber: 3.1 Consensus size: 241
740114 ATCAAAACAA
* * * * ** **
740124 TAGATGGGTTGACCAAGGCAAAACCGATAAAGTCAACCAATTAAAAGGTGAGTTAAGGCGAAATT
1 TAGAAGGGTTGACTAGGGCAAAACCAATAAAGTCAACCAATTAAAAGGTG-GCCAAGGCGAAACA
* * *
740189 GATAAAGCCAATGAGTTAGAAGGGTTGACTAGGGCGAAAGC-GTTAAAGTCAACCAATTAAAAAG
65 GATAAAGCCAACGAGTTAGAAGGGTTGACTAGGGC-AAA-CTGATAAAGTCAACCAATTAAAAGG
* * * * * *
740253 GTTGGCTAGAGTGAAATCGATAGAGCCAAAGG-TTAGAAAGGTTGACTAAGG-CGAAACCAATAA
128 GTTGGCTAG-GTGAAATCGATAAAGCCAACGGATTAGAAGGGTTGAC-CAGGACGAAATCGATAA
* * * *
740316 AGTCAACCAATTAAAAGGTTGGCCAAGGCAAAACCGAAAAAGCTAAAGGGT
191 AGTCAACCAATTGAAAGGTTGGCTAGGGCAAAACCGAAAAAGCCAAAGGGT
*** *
740367 TAGAAGGGTTGACTAGGATGAAACCAATAAAGTCAACTAATTAAAAGAGATGGCCAAGGCGAAAC
1 TAGAAGGGTTGACTAGGGCAAAACCAATAAAGTCAACCAATTAAAAG-G-TGGCCAAGGCGAAAC
* * *
740432 CGATAAAGCCAACAAGTTAAAAGGGTTGACTAGGGCTAAACTGATAAAGTCAACCAATTAAAAGG
64 AGATAAAGCCAACGAGTTAGAAGGGTTGACTAGGGC-AAACTGATAAAGTCAACCAATTAAAAGG
* * * *
740497 GTTAGCTTGGTGAAATCGATAAAGCCAACGGATTAGAAGGGTTGACCAGGATGAAATCGATAAGG
128 GTTGGCTAGGTGAAATCGATAAAGCCAACGGATTAGAAGGGTTGACCAGGACGAAATCGATAAAG
* *
740562 TCAACCAATTGAAAGGTTGGTTAGGGCAAAACC-AATAAAGCCAACA-GTT
193 TCAACCAATTGAAAGGTTGGCTAGGGCAAAACCGAA-AAAGCCAA-AGGGT
* * ** * * * *
740611 TAGAAAGGTTGATTAGGGCAAAACTGATAAAGTCAACGAATTAGAAGGGTTAGCCAAGGTGAAAC
1 TAGAAGGGTTGACTAGGGCAAAACCAATAAAGTCAACCAATTA-AAAGG-TGGCCAAGGCGAAAC
* * * *
740676 AGATAAAGCCAAACGGGTTAGAAGGGTTGACCAGGGCAAAATGATAAAGTCAACTAATTAAAAGG
64 AGATAAAGCC-AACGAGTTAGAAGGGTTGACTAGGGCAAACTGATAAAGTCAACCAATTAAAAGG
* * * * **
740741 GTTGGCCAGG-GCAAAACCGATAAAGCCAAC-AAGTTAAAAGGGTTGA-CTTGAGCGAAAGT-GA
128 GTTGGCTAGGTG--AAATCGATAAAGCCAACGGA-TTAGAAGGGTTGACCAGGA-CGAAA-TCGA
** * * *
740802 TAAAGTCAACCAATTGAAAGGTTGGCTAGGGTGAAACTGATAAAGCCAACGGGT
188 TAAAGTCAACCAATTGAAAGGTTGGCTAGGGCAAAACCGAAAAAGCCAAAGGGT
*
740856 TAGAAGGGTTGACTAGGGCAAAACCAATAGAGTCAA
1 TAGAAGGGTTGACTAGGGCAAAACCAATAAAGTCAA
740892 AGGGTTAGAA
Statistics
Matches: 434, Mismatches: 75, Indels: 30
0.81 0.14 0.06
Matches are distributed among these distances:
243 66 0.15
244 230 0.53
245 136 0.31
246 2 0.00
ACGTcount: A:0.41, C:0.14, G:0.26, T:0.18
Consensus pattern (241 bp):
TAGAAGGGTTGACTAGGGCAAAACCAATAAAGTCAACCAATTAAAAGGTGGCCAAGGCGAAACAG
ATAAAGCCAACGAGTTAGAAGGGTTGACTAGGGCAAACTGATAAAGTCAACCAATTAAAAGGGTT
GGCTAGGTGAAATCGATAAAGCCAACGGATTAGAAGGGTTGACCAGGACGAAATCGATAAAGTCA
ACCAATTGAAAGGTTGGCTAGGGCAAAACCGAAAAAGCCAAAGGGT
Found at i:740825 original size:204 final size:203
Alignment explanation
Indices: 740613--741019 Score: 498
Period size: 204 Copynumber: 2.0 Consensus size: 203
740603 CAACAGTTTA
* * *
740613 GAAAGGTTGATTAGGGCAAAACTGATAAAGTCAACGAATTAGAAGGGTTAGCCAAGGTG-AAA-C
1 GAAAGGTTGACTAGGGCAAAACTGATAAAGCCAACGAATTAGAAGGGTT-GACAAGG-GAAAACC
* * *
740676 AGATAAAGCCAAACGGGTTAGAAGGGTTGACCAGGGC-AAAATGATAAAGTCAACT-AATTAAAA
64 A-ATAAAGCCAAA-GGGTTAGAAGGATTGACCAGGGCGAAAATAATAAAATCAA-TAAATTAAAA
* *** *
740739 GGGTTGGCCAGGGCAAAACCGATAAAGCCAACAAGTTAAAAGGGTTGACTTGAGCGAAAGTGATA
126 GGGTTGGCCAGGGCAAAACCGATAAAGCCAACAAGTTAAAAAGGTTGACCAAAGCGAAACTGATA
*
740804 AAGTCAACCAATT
191 AAATCAACCAATT
* ** ** *
740817 GAAAGGTTGGCTAGGGTGAAACTGATAAAGCCAACGGGTTAGAAGGGTTGACTAGGGCAAAACCA
1 GAAAGGTTGACTAGGGCAAAACTGATAAAGCCAACGAATTAGAAGGGTTGACAAGGG-AAAACCA
* * * *
740882 ATAGAGTCAAAGGGTTAGAAGGATTGACTAGGGCGAAACTAATAAAATCAATAAATTAAAAGGGT
65 ATAAAGCCAAAGGGTTAGAAGGATTGACCAGGGCGAAAATAATAAAATCAATAAATTAAAAGGGT
* * **
740947 TGGCTAGGGCAAAATCGATAAAGCCAACGGGTTAAAAAGGTTGACCAAAGCGAAACTGATAAAAT
130 TGGCCAGGGCAAAACCGATAAAGCCAACAAGTTAAAAAGGTTGACCAAAGCGAAACTGATAAAAT
741012 CAACCAAT
195 CAACCAAT
741020 CAATAGGGTA
Statistics
Matches: 172, Mismatches: 26, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
202 1 0.01
203 27 0.16
204 142 0.83
205 2 0.01
ACGTcount: A:0.42, C:0.14, G:0.27, T:0.18
Consensus pattern (203 bp):
GAAAGGTTGACTAGGGCAAAACTGATAAAGCCAACGAATTAGAAGGGTTGACAAGGGAAAACCAA
TAAAGCCAAAGGGTTAGAAGGATTGACCAGGGCGAAAATAATAAAATCAATAAATTAAAAGGGTT
GGCCAGGGCAAAACCGATAAAGCCAACAAGTTAAAAAGGTTGACCAAAGCGAAACTGATAAAATC
AACCAATT
Found at i:740969 original size:163 final size:163
Alignment explanation
Indices: 740129--741009 Score: 715
Period size: 163 Copynumber: 5.4 Consensus size: 163
740119 AACAATAGAT
* * * * ** * *
740129 GGGTTGACCAAGGCAAAACCGATAAAGTCAACCAATTAAAAGGTGAGTTAAGGCGAAATTGATAA
1 GGGTTGACTAGGGCAAAACTGATAAAGTCAACCAATTAAAAGGTTAGCCAAGGTGAAACTGATAA
* * * * * * ** *
740194 AGCCAATGAGTTAGAAGGGTTGACTAGGGCGAAAGCGTTAAAGTCAACCAATTAAAAAGG-TTGG
66 AGCCAACGGGTTAGAAGGGTTGACCAGGACAAAACCAATAAAGTCAACTAATT-AAAAGGATTGG
* * ** * * * *
740258 CTAGAGTGAAATCGATAGAGCCAA-AGGTTAGAAA
130 CCAGGGCAAAACCAATAAAGCCAACAAGTTA-AAA
* * ** * ** * *
740292 -GGTTGACTAAGGCGAAACCAATAAAGTCAACCAATTAAAAGGTTGGCCAAGGCAAAACCGAAAA
1 GGGTTGACTAGGGCAAAACTGATAAAGTCAACCAATTAAAAGGTTAGCCAAGGTGAAACTGATAA
* * * **
740356 AGCTAAAGGGTTAGAAGGGTTGACTAGGATGAAACCAATAAAGTCAACTAATTAAAAGAGA-TGG
66 AGCCAACGGGTTAGAAGGGTTGACCAGGACAAAACCAATAAAGTCAACTAATTAAAAG-GATTGG
* * *
740420 CCAAGGCGAAACCGATAAAGCCAACAAGTTAAAA
130 CCAGGGCAAAACCAATAAAGCCAACAAGTTAAAA
* **
740454 GGGTTGACTAGGGCTAAACTGATAAAGTCAACCAATTAAAAGGGTTAG-CTTGGTGAAA-TCGAT
1 GGGTTGACTAGGGCAAAACTGATAAAGTCAACCAATTAAAA-GGTTAGCCAAGGTGAAACT-GAT
* ** * * * * *
740517 AAAGCCAACGGATTAGAAGGGTTGACCAGGATGAAATCGATAAGGTCAACCAATTGAAAGG-TTG
64 AAAGCCAACGGGTTAGAAGGGTTGACCAGGACAAAACCAATAAAGTCAACTAATTAAAAGGATTG
**
740581 GTTAGGGCAAAACCAATAAAGCCAAC-AGTTTAGAAA
129 GCCAGGGCAAAACCAATAAAGCCAACAAG-TTA-AAA
* * * *
740617 -GGTTGATTAGGGCAAAACTGATAAAGTCAACGAATTAGAAGGGTTAGCCAAGGTGAAACAGATA
1 GGGTTGACTAGGGCAAAACTGATAAAGTCAACCAATTA-AAAGGTTAGCCAAGGTGAAACTGATA
* ** *
740681 AAGCCAAACGGGTTAGAAGGGTTGACCAGGGCAAAA-TGATAAAGTCAACTAATTAAAAGGGTTG
65 AAGCC-AACGGGTTAGAAGGGTTGACCAGGACAAAACCAATAAAGTCAACTAATTAAAAGGATTG
*
740745 GCCAGGGCAAAACCGATAAAGCCAACAAGTTAAAA
129 GCCAGGGCAAAACCAATAAAGCCAACAAGTTAAAA
* * * * * * * *
740780 GGGTTGACTTGAGCGAAAGTGATAAAGTCAACCAATTGAAAGGTTGGCTAGGGTGAAACTGATAA
1 GGGTTGACTAGGGCAAAACTGATAAAGTCAACCAATTAAAAGGTTAGCCAAGGTGAAACTGATAA
* * * **** * *
740845 AGCCAACGGGTTAGAAGGGTTGACTAGGGCAAAACCAATAGAGTCAAAGGGTTAGAAGGATTGAC
66 AGCCAACGGGTTAGAAGGGTTGACCAGGACAAAACCAATAAAGTCAACTAATTAAAAGGATTGGC
* * * ** * *
740910 TAGGGCGAAACTAATAAAATCAATAAATTAAAA
131 CAGGGCAAAACCAATAAAGCCAACAAGTTAAAA
* * *** * *
740943 GGGTTGGCTAGGGCAAAA-TCGATAAAGCCAACGGGTTAAAAAGGTT-GACCAAAGCGAAACTGA
1 GGGTTGACTAGGGCAAAACT-GATAAAGTCAACCAATT-AAAAGGTTAG-CCAAGGTGAAACTGA
741006 TAAA
63 TAAA
741010 ATCAACCAAT
Statistics
Matches: 584, Mismatches: 114, Indels: 39
0.79 0.15 0.05
Matches are distributed among these distances:
161 7 0.01
162 219 0.38
163 244 0.42
164 112 0.19
165 2 0.00
ACGTcount: A:0.42, C:0.14, G:0.26, T:0.18
Consensus pattern (163 bp):
GGGTTGACTAGGGCAAAACTGATAAAGTCAACCAATTAAAAGGTTAGCCAAGGTGAAACTGATAA
AGCCAACGGGTTAGAAGGGTTGACCAGGACAAAACCAATAAAGTCAACTAATTAAAAGGATTGGC
CAGGGCAAAACCAATAAAGCCAACAAGTTAAAA
Found at i:741028 original size:82 final size:82
Alignment explanation
Indices: 740859--741028 Score: 189
Period size: 82 Copynumber: 2.1 Consensus size: 82
740849 AACGGGTTAG
* * * * **
740859 AAGGGTTGACTAGGGCAAAACCAATAGAGTCAAAGGGTTAGAAGGATTGACTAGGGCGAAACTAA
1 AAGGGTTGACTAGGGCAAAACCAATAAAGCCAAAGGGTTAAAAGGATTGACCAAAGCGAAACTAA
* *
740924 TAAAATCAATAAATTAA
66 TAAAATCAACAAATCAA
* * * * *
740941 AAGGGTTGGCTAGGGCAAAATCGATAAAGCCAACGGGTTAAAAAGG-TTGACCAAAGCGAAACTG
1 AAGGGTTGACTAGGGCAAAACCAATAAAGCCAAAGGGTT-AAAAGGATTGACCAAAGCGAAACTA
*
741005 ATAAAATCAACCAATCAA
65 ATAAAATCAACAAATCAA
*
741023 TAGGGT
1 AAGGGT
741029 AAAAAGGGAT
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
82 67 0.93
83 5 0.07
ACGTcount: A:0.44, C:0.14, G:0.25, T:0.18
Consensus pattern (82 bp):
AAGGGTTGACTAGGGCAAAACCAATAAAGCCAAAGGGTTAAAAGGATTGACCAAAGCGAAACTAA
TAAAATCAACAAATCAA
Found at i:741385 original size:108 final size:108
Alignment explanation
Indices: 741130--741428 Score: 394
Period size: 108 Copynumber: 2.8 Consensus size: 108
741120 GCTAAAAAAC
**
741130 GTTTGACCAGATATAGTCAAACTT--TGATGGAAAGAAGTTTGACCAGATACAATTGAACGATGG
1 GTTTGACCAGATATAGT-AAA-TTGATGATGGAAAGAAGTTTGACCAGATACAATCAAACGATGG
*
741193 TGGAAA-AAGTTTGACTAGAT-CTAGTCAAACGATGGTGGAAAGA
64 TGGAAAGAAGTTTGACTAGATACTAATCAAACGATGGTGGAAAGA
* * * *
741236 GTTTGACCAGATACAGTCAAA-TGATAATGGAAAGAAGTTTGACTAGATACAATCAAATGATGGT
1 GTTTGACCAGATATAGT-AAATTGATGATGGAAAGAAGTTTGACCAGATACAATCAAACGATGGT
* *
741300 GGAAAGAAGTTTGACCAGATAC-AATCAAATGATGGTGGAAAGAA
65 GGAAAGAAGTTTGACTAGATACTAATCAAACGATGGTGGAAAG-A
* * * * *
741344 GTTTGACCAGATATAGTTAATTGATGGTGGAAAGAAATTTGACCAGATACAATCAAACGATGATT
1 GTTTGACCAGATATAGTAAATTGATGATGGAAAGAAGTTTGACCAGATACAATCAAACGATGGTG
741409 GAAAGAAGTTTGACTAGATA
66 GAAAGAAGTTTGACTAGATA
741429 TAGTCCAAAG
Statistics
Matches: 168, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
104 1 0.01
106 60 0.36
107 33 0.20
108 74 0.44
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.25
Consensus pattern (108 bp):
GTTTGACCAGATATAGTAAATTGATGATGGAAAGAAGTTTGACCAGATACAATCAAACGATGGTG
GAAAGAAGTTTGACTAGATACTAATCAAACGATGGTGGAAAGA
Found at i:741442 original size:36 final size:36
Alignment explanation
Indices: 741130--741441 Score: 344
Period size: 36 Copynumber: 8.7 Consensus size: 36
741120 GCTAAAAAAC
* ** *
741130 GTTTGACCAGATATAGTCAAACTTTGATGGAAAGAA
1 GTTTGACCAGATACAGTCAAACGATGGTGGAAAGAA
* **
741166 GTTTGACCAGATACAATTGAACGATGGTGGAAA-AA
1 GTTTGACCAGATACAGTCAAACGATGGTGGAAAGAA
*
741201 GTTTGACTAGAT-CTAGTCAAACGATGGTGGAAAG-A
1 GTTTGACCAGATAC-AGTCAAACGATGGTGGAAAGAA
* **
741236 GTTTGACCAGATACAGTCAAATGATAATGGAAAGAA
1 GTTTGACCAGATACAGTCAAACGATGGTGGAAAGAA
* * *
741272 GTTTGACTAGATACAATCAAATGATGGTGGAAAGAA
1 GTTTGACCAGATACAGTCAAACGATGGTGGAAAGAA
* *
741308 GTTTGACCAGATACAATCAAATGATGGTGGAAAGAA
1 GTTTGACCAGATACAGTCAAACGATGGTGGAAAGAA
* * **
741344 GTTTGACCAGATATAGTTAATTGATGGTGGAAAGAA
1 GTTTGACCAGATACAGTCAAACGATGGTGGAAAGAA
* * * *
741380 ATTTGACCAGATACAATCAAACGATGATTGAAAGAA
1 GTTTGACCAGATACAGTCAAACGATGGTGGAAAGAA
* *
741416 GTTTGACTAGATATAGTCCAAA-GATG
1 GTTTGACCAGATACAGT-CAAACGATG
741442 AAAGACTTGA
Statistics
Matches: 235, Mismatches: 36, Indels: 10
0.84 0.13 0.04
Matches are distributed among these distances:
34 1 0.00
35 58 0.25
36 172 0.73
37 4 0.02
ACGTcount: A:0.40, C:0.11, G:0.24, T:0.25
Consensus pattern (36 bp):
GTTTGACCAGATACAGTCAAACGATGGTGGAAAGAA
Found at i:741756 original size:89 final size:87
Alignment explanation
Indices: 741639--741893 Score: 291
Period size: 89 Copynumber: 2.9 Consensus size: 87
741629 GTCGAGGTAT
* *
741639 CCTTGCCCTAGGAAAATCAGGCTTTGTGATGCATCAATACCATTTAGTGGTTGGATGAAGGGGGT
1 CCTTGCCCTAGG-AAATCAGGCTTTGTGATGCATCAATACCATCTAGTGGTTGGA-GAAGGGGAT
741704 ATGATTGGGAATGT-GTAGGCTACA
64 ATGATTGGGAATGTCG-AGGCTACA
* * *
741728 CCTTGCCCTGAGGAAATCAAGCTTTGTGATACATCAATACCATGTAGTGGTT-GAGAAAGAGGGA
1 CCTTGCCCT-AGGAAATCAGGCTTTGTGATGCATCAATACCATCTAGTGGTTGGAG-AAG-GGGA
* *
741792 TATGATTGAGG-ATGTCGAGGTTGCA
63 TATGATTG-GGAATGTCGAGGCTACA
* * * * *
741817 CCTTACCCCAAGGAAATTAGGCTTTGTGATGCATCAGTACCATCTAGTAGTTGGAAGAAGGGGAT
1 CCTT-GCCCTAGGAAATCAGGCTTTGTGATGCATCAATACCATCTAGTGGTTGG-AGAAGGGGAT
*
741882 ATGATGGGGAAT
64 ATGATTGGGAAT
741894 ATGTGGTTTC
Statistics
Matches: 142, Mismatches: 15, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
87 1 0.01
88 7 0.05
89 119 0.84
90 13 0.09
91 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.27
Consensus pattern (87 bp):
CCTTGCCCTAGGAAATCAGGCTTTGTGATGCATCAATACCATCTAGTGGTTGGAGAAGGGGATAT
GATTGGGAATGTCGAGGCTACA
Found at i:742105 original size:65 final size:65
Alignment explanation
Indices: 742026--742155 Score: 251
Period size: 65 Copynumber: 2.0 Consensus size: 65
742016 AAAATACACT
*
742026 CGAAATAAAGGCAAACATAAATGTCATCGAATGGTGCAAACACGCATGAGGTGATATAAATGTAG
1 CGAAATAAAGGCAAACATAAATGTCATCGAATGGCGCAAACACGCATGAGGTGATATAAATGTAG
742091 CGAAATAAAGGCAAACATAAATGTCATCGAATGGCGCAAACACGCATGAGGTGATATAAATGTAG
1 CGAAATAAAGGCAAACATAAATGTCATCGAATGGCGCAAACACGCATGAGGTGATATAAATGTAG
742156 TGTCAATAAA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.19
Consensus pattern (65 bp):
CGAAATAAAGGCAAACATAAATGTCATCGAATGGCGCAAACACGCATGAGGTGATATAAATGTAG
Found at i:742358 original size:44 final size:46
Alignment explanation
Indices: 742158--742376 Score: 162
Period size: 44 Copynumber: 4.9 Consensus size: 46
742148 AAATGTAGTG
*
742158 TCAATAAAGTGGCAACA--CATATGAAATGATGCAAATACTAATGTCA
1 TCAATAAAGTGGCAA-ATGCATATGAAATGATGCAAATGC-AATGTCA
*
742204 TC--CAAAGT-GCAGATATGCATA--AAATGATGCAAATGCAA-G-CA
1 TCAATAAAGTGGCA-A-ATGCATATGAAATGATGCAAATGCAATGTCA
** ** *
742245 TCAATAAAAAGGCAAATGCATATGAAAT-ACTATAAATACCAATGTCA
1 TCAATAAAGTGGCAAATGCATATGAAATGA-TGCAAAT-GCAATGTCA
* * ***
742292 TC--TAAAAT-GCATATGTGCATGAAATGATGCAAATGCAA-GT-A
1 TCAATAAAGTGGCAAATGCATATGAAATGATGCAAATGCAATGTCA
742333 TCAATAAAGTGGCAAATGCATATGAAATGATGCAAATGCCAATG
1 TCAATAAAGTGGCAAATGCATATGAAATGATGCAAATG-CAATG
742377 CCATGCAAAT
Statistics
Matches: 133, Mismatches: 22, Indels: 36
0.70 0.12 0.19
Matches are distributed among these distances:
41 7 0.05
42 10 0.08
43 18 0.14
44 74 0.56
45 12 0.09
46 8 0.06
47 4 0.03
ACGTcount: A:0.45, C:0.15, G:0.17, T:0.23
Consensus pattern (46 bp):
TCAATAAAGTGGCAAATGCATATGAAATGATGCAAATGCAATGTCA
Found at i:742375 original size:88 final size:88
Alignment explanation
Indices: 742158--742389 Score: 292
Period size: 88 Copynumber: 2.7 Consensus size: 88
742148 AAATGTAGTG
* *
742158 TCAATAAAGTGGCAACA--CATATGAAATGATGCAAATACTAATGTCATCCAAAGTGCAGATATG
1 TCAATAAAGTGGCAA-ATGCATATGAAATGATGCAAATACCAATGTCATCCAAAATGCAGATATG
742221 CATAAAATGATGCAAATGCAAGCA
65 CATAAAATGATGCAAATGCAAGCA
** ** * * *
742245 TCAATAAAAAGGCAAATGCATATGAAAT-ACTATAAATACCAATGTCATCTAAAATGCATATGTG
1 TCAATAAAGTGGCAAATGCATATGAAATGA-TGCAAATACCAATGTCATCCAAAATGCAGATATG
* *
742309 CATGAAATGATGCAAATGCAAGTA
65 CATAAAATGATGCAAATGCAAGCA
* * *
742333 TCAATAAAGTGGCAAATGCATATGAAATGATGCAAATGCCAATGCCATGC-AAATGCA
1 TCAATAAAGTGGCAAATGCATATGAAATGATGCAAATACCAATGTCATCCAAAATGCA
742390 AGCATTAGTA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
86 1 0.01
87 21 0.17
88 99 0.81
89 1 0.01
ACGTcount: A:0.45, C:0.16, G:0.17, T:0.23
Consensus pattern (88 bp):
TCAATAAAGTGGCAAATGCATATGAAATGATGCAAATACCAATGTCATCCAAAATGCAGATATGC
ATAAAATGATGCAAATGCAAGCA
Found at i:743314 original size:32 final size:33
Alignment explanation
Indices: 743254--743317 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
743244 TACAAGCTAA
**
743254 TGTATCGATACATTTTTTGGTGTATCGATACAT
1 TGTATCGATACATACTTTGGTGTATCGATACAT
*
743287 TGTATCGATATATACTTT-GTGTATCGATACA
1 TGTATCGATACATACTTTGGTGTATCGATACA
743318 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.44
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCGATACAT
Found at i:746871 original size:13 final size:13
Alignment explanation
Indices: 746853--746878 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
746843 ATTTTTTTGG
746853 TGTATCGATACAT
1 TGTATCGATACAT
746866 TGTATCGATACAT
1 TGTATCGATACAT
746879 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:749456 original size:13 final size:13
Alignment explanation
Indices: 749438--749476 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
749428 ATAATCCCCC
* *
749438 TGTATCGATATAG
1 TGTATCGATACAA
749451 TGTATCGATACAA
1 TGTATCGATACAA
749464 TGTATCGATACAA
1 TGTATCGATACAA
749477 AGAAAAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:755666 original size:13 final size:13
Alignment explanation
Indices: 755648--755673 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
755638 ATTTTTTCGG
755648 TGTATCGATACAT
1 TGTATCGATACAT
755661 TGTATCGATACAT
1 TGTATCGATACAT
755674 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:764206 original size:13 final size:13
Alignment explanation
Indices: 764188--764278 Score: 137
Period size: 13 Copynumber: 7.0 Consensus size: 13
764178 ATAAACCCCC
*
764188 TGTATCGATACAG
1 TGTATCGATACAA
764201 TGTATCGATACAA
1 TGTATCGATACAA
* *
764214 TGTATCGGTACAG
1 TGTATCGATACAA
764227 TGTATCGATACAA
1 TGTATCGATACAA
* *
764240 TGTATCGGTACAG
1 TGTATCGATACAA
764253 TGTATCGATACAA
1 TGTATCGATACAA
764266 TGTATCGATACAA
1 TGTATCGATACAA
764279 AGAAAGATGT
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 69 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:764217 original size:26 final size:26
Alignment explanation
Indices: 764188--764277 Score: 162
Period size: 26 Copynumber: 3.5 Consensus size: 26
764178 ATAAACCCCC
764188 TGTATCGATACAGTGTATCGATACAA
1 TGTATCGATACAGTGTATCGATACAA
*
764214 TGTATCGGTACAGTGTATCGATACAA
1 TGTATCGATACAGTGTATCGATACAA
*
764240 TGTATCGGTACAGTGTATCGATACAA
1 TGTATCGATACAGTGTATCGATACAA
764266 TGTATCGATACA
1 TGTATCGATACA
764278 AAGAAAGATG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 62 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (26 bp):
TGTATCGATACAGTGTATCGATACAA
Found at i:770483 original size:13 final size:13
Alignment explanation
Indices: 770465--770490 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
770455 CATTTTTTGG
770465 TGTATCGATACAT
1 TGTATCGATACAT
770478 TGTATCGATACAT
1 TGTATCGATACAT
770491 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:770505 original size:32 final size:33
Alignment explanation
Indices: 770445--770508 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
770435 TACAAGCTAA
**
770445 TGTATCGATACATTTTTTGGTGTATCGATACAT
1 TGTATCGATACATACTTTGGTGTATCGATACAT
770478 TGTATCGATACATACTTT-GTGTATCGATACA
1 TGTATCGATACATACTTTGGTGTATCGATACA
770509 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCGATACAT
Found at i:773638 original size:20 final size:21
Alignment explanation
Indices: 773607--773645 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
773597 AGGTCAAAAC
773607 CCTAGAAAGTATCGATACAGA
1 CCTAGAAAGTATCGATACAGA
773628 CCTAG-AAGTATCGATACA
1 CCTAGAAAGTATCGATACA
773646 TATTGCTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.21
Consensus pattern (21 bp):
CCTAGAAAGTATCGATACAGA
Found at i:773792 original size:33 final size:33
Alignment explanation
Indices: 773748--773817 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
773738 CTACCACTAT
* * * *
773748 TTGTATCGATACATGGT-ACAATGTATCGATATA
1 TTGTATAGATACATAGTGA-AAAGTATCGATACA
773781 TTGTATAGATACATAGTGAAAAGTATCGATACA
1 TTGTATAGATACATAGTGAAAAGTATCGATACA
773814 TTGT
1 TTGT
773818 GCCCAATTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.36
Consensus pattern (33 bp):
TTGTATAGATACATAGTGAAAAGTATCGATACA
Found at i:774422 original size:18 final size:18
Alignment explanation
Indices: 774399--774434 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
774389 TAGACTGAAC
774399 CTCTATAAACATTTGTGT
1 CTCTATAAACATTTGTGT
774417 CTCTATAAACATTTGTGT
1 CTCTATAAACATTTGTGT
774435 TGAGCTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.44
Consensus pattern (18 bp):
CTCTATAAACATTTGTGT
Found at i:779959 original size:13 final size:13
Alignment explanation
Indices: 779938--779977 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
779928 TGTGTTCGTA
*
779938 GTATCGATACATT
1 GTATCGATACAAT
*
779951 GTATTGATACAAT
1 GTATCGATACAAT
779964 GTATCGATACAAT
1 GTATCGATACAAT
779977 G
1 G
779978 GCACTATTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (13 bp):
GTATCGATACAAT
Found at i:781094 original size:29 final size:29
Alignment explanation
Indices: 781054--781109 Score: 96
Period size: 29 Copynumber: 1.9 Consensus size: 29
781044 ACTCTCGCAG
781054 TCATCAGAAACTTCGATTATTGGTGGCCA
1 TCATCAGAAACTTCGATTATTGGTGGCCA
781083 TCATCA-ATAACTTCGATTATTGGTGGC
1 TCATCAGA-AACTTCGATTATTGGTGGC
781110 TTNNNNNNNN
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 1 0.04
29 25 0.96
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (29 bp):
TCATCAGAAACTTCGATTATTGGTGGCCA
Found at i:781760 original size:13 final size:13
Alignment explanation
Indices: 781742--781767 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
781732 ATTTTTTCGG
781742 TGTATCGATACAT
1 TGTATCGATACAT
781755 TGTATCGATACAT
1 TGTATCGATACAT
781768 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:790302 original size:13 final size:13
Alignment explanation
Indices: 790284--790504 Score: 307
Period size: 13 Copynumber: 17.0 Consensus size: 13
790274 ATAAACCCCC
*
790284 TGTATCGATACAG
1 TGTATCGATACAA
790297 TGTATCGATACAA
1 TGTATCGATACAA
* *
790310 TGTATCGGTACAG
1 TGTATCGATACAA
790323 TGTATCGATACAA
1 TGTATCGATACAA
* *
790336 TGTATCGGTACAG
1 TGTATCGATACAA
790349 TGTATCGATACAA
1 TGTATCGATACAA
* *
790362 TGTATCGGTACAG
1 TGTATCGATACAA
790375 TGTATCGATACAA
1 TGTATCGATACAA
* *
790388 TGTATCGGTACAG
1 TGTATCGATACAA
790401 TGTATCGATACAA
1 TGTATCGATACAA
* *
790414 TGTATCGGTACAG
1 TGTATCGATACAA
790427 TGTATCGATACAA
1 TGTATCGATACAA
* *
790440 TGTATCGGTACAG
1 TGTATCGATACAA
790453 TGTATCGATACAA
1 TGTATCGATACAA
* *
790466 TGTATCGGTACAG
1 TGTATCGATACAA
790479 TGTATCGATACAA
1 TGTATCGATACAA
790492 TGTATCGATACAA
1 TGTATCGATACAA
790505 AGAAAGATGT
Statistics
Matches: 179, Mismatches: 29, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 179 1.00
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:790313 original size:26 final size:26
Alignment explanation
Indices: 790284--790503 Score: 422
Period size: 26 Copynumber: 8.5 Consensus size: 26
790274 ATAAACCCCC
*
790284 TGTATCGATACAGTGTATCGATACAA
1 TGTATCGGTACAGTGTATCGATACAA
790310 TGTATCGGTACAGTGTATCGATACAA
1 TGTATCGGTACAGTGTATCGATACAA
790336 TGTATCGGTACAGTGTATCGATACAA
1 TGTATCGGTACAGTGTATCGATACAA
790362 TGTATCGGTACAGTGTATCGATACAA
1 TGTATCGGTACAGTGTATCGATACAA
790388 TGTATCGGTACAGTGTATCGATACAA
1 TGTATCGGTACAGTGTATCGATACAA
790414 TGTATCGGTACAGTGTATCGATACAA
1 TGTATCGGTACAGTGTATCGATACAA
790440 TGTATCGGTACAGTGTATCGATACAA
1 TGTATCGGTACAGTGTATCGATACAA
790466 TGTATCGGTACAGTGTATCGATACAA
1 TGTATCGGTACAGTGTATCGATACAA
*
790492 TGTATCGATACA
1 TGTATCGGTACA
790504 AAGAAAGATG
Statistics
Matches: 192, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
26 192 1.00
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.31
Consensus pattern (26 bp):
TGTATCGGTACAGTGTATCGATACAA
Found at i:796712 original size:13 final size:13
Alignment explanation
Indices: 796694--796719 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
796684 CATTTTTTGG
796694 TGTATCGATACAT
1 TGTATCGATACAT
796707 TGTATCGATACAT
1 TGTATCGATACAT
796720 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:796734 original size:32 final size:33
Alignment explanation
Indices: 796674--796737 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
796664 TACAAGCTAA
**
796674 TGTATCGATACATTTTTTGGTGTATCGATACAT
1 TGTATCGATACATACTTTGGTGTATCGATACAT
796707 TGTATCGATACATACTTT-GTGTATCGATACA
1 TGTATCGATACATACTTTGGTGTATCGATACA
796738 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCGATACAT
Found at i:799866 original size:20 final size:21
Alignment explanation
Indices: 799835--799873 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
799825 AGGTCAAAAC
799835 CCTAGAAAGTATCGATACAGA
1 CCTAGAAAGTATCGATACAGA
799856 CCTAG-AAGTATCGATACA
1 CCTAGAAAGTATCGATACA
799874 TATTGCTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.21
Consensus pattern (21 bp):
CCTAGAAAGTATCGATACAGA
Found at i:800020 original size:33 final size:33
Alignment explanation
Indices: 799976--800045 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
799966 CTACCACTAT
* * * *
799976 TTGTATCGATACATGGT-ACAATGTATCGATATA
1 TTGTATAGATACATAGTGA-AAAGTATCGATACA
800009 TTGTATAGATACATAGTGAAAAGTATCGATACA
1 TTGTATAGATACATAGTGAAAAGTATCGATACA
800042 TTGT
1 TTGT
800046 GCCCAATTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.36
Consensus pattern (33 bp):
TTGTATAGATACATAGTGAAAAGTATCGATACA
Found at i:800649 original size:18 final size:18
Alignment explanation
Indices: 800626--800661 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
800616 TAGACTGAAC
800626 CTCTATAAACATTTGTGT
1 CTCTATAAACATTTGTGT
800644 CTCTATAAACATTTGTGT
1 CTCTATAAACATTTGTGT
800662 TGAGCTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.44
Consensus pattern (18 bp):
CTCTATAAACATTTGTGT
Found at i:806179 original size:13 final size:13
Alignment explanation
Indices: 806158--806197 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
806148 TGTGTTCGTA
*
806158 GTATCGATACATT
1 GTATCGATACAAT
*
806171 GTATTGATACAAT
1 GTATCGATACAAT
806184 GTATCGATACAAT
1 GTATCGATACAAT
806197 G
1 G
806198 GCACTATTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (13 bp):
GTATCGATACAAT
Found at i:806319 original size:31 final size:31
Alignment explanation
Indices: 806284--806361 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 31
806274 GTTTTCAATC
*
806284 TCAAATTTCATCAA-TTCTTTCTCAAATTTCA
1 TCAAATTTCATCAATTTCCTT-TCAAATTTCA
**
806315 TCAAATTTACAT-AATTTCCTTTCATTTTTCA
1 TCAAATTT-CATCAATTTCCTTTCAAATTTCA
806346 TCAAAATTTTCATCAA
1 TC-AAA-TTTCATCAA
806362 AAATGGTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
31 20 0.51
32 14 0.36
33 5 0.13
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.46
Consensus pattern (31 bp):
TCAAATTTCATCAATTTCCTTTCAAATTTCA
Found at i:807302 original size:29 final size:29
Alignment explanation
Indices: 807262--807317 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
807252 CAATACTCCG
*
807262 TCATCAGTAACTTCGATTATTGGTGGCCA
1 TCATCAATAACTTCGATTATTGGTGGCCA
807291 TCATCAATAACTTCGATTATTGGTGGC
1 TCATCAATAACTTCGATTATTGGTGGC
807318 TTCACATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.36
Consensus pattern (29 bp):
TCATCAATAACTTCGATTATTGGTGGCCA
Found at i:808562 original size:54 final size:53
Alignment explanation
Indices: 808482--808590 Score: 193
Period size: 54 Copynumber: 2.0 Consensus size: 53
808472 AATGAAGAGA
808482 TTGTTAGTATCTTGTTTTGATATAACAAAGTATGAATAAAACC-AAAATATACT
1 TTGTTAGTATCTTGTTTTGATATAACAAAGTATGAATAAAACCGAAAA-ATACT
808535 TTGTTAGTATCTTGGTTTTGATATAACAAAGTATGAATAAAACCGAAAAATACT
1 TTGTTAGTATCTT-GTTTTGATATAACAAAGTATGAATAAAACCGAAAAATACT
808589 TT
1 TT
808591 AAAAAACCTT
Statistics
Matches: 54, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
53 13 0.24
54 37 0.69
55 4 0.07
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (53 bp):
TTGTTAGTATCTTGTTTTGATATAACAAAGTATGAATAAAACCGAAAAATACT
Found at i:811429 original size:22 final size:22
Alignment explanation
Indices: 811381--811429 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
811371 AAAAGTGCCA
*
811381 ATGTACTGATTCAAGGTCAGCC
1 ATGTTCTGATTCAAGGTCAGCC
811403 ATGTTCTGATTCAAGGTCAGCC
1 ATGTTCTGATTCAAGGTCAGCC
811425 ATGTT
1 ATGTT
811430 GGACTTAAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.33
Consensus pattern (22 bp):
ATGTTCTGATTCAAGGTCAGCC
Found at i:811498 original size:61 final size:61
Alignment explanation
Indices: 811433--811654 Score: 192
Period size: 61 Copynumber: 3.8 Consensus size: 61
811423 CCATGTTGGA
* * * * *
811433 CTTAAGGATGTGAAGAATGATAAAGGTGCCAATATGTTGATTCATGGCCAGCAATATCAGG
1 CTTAAAGATGAGAAGAATGATAAAGGTGCCAATATGCTAATTCAAGGCCAGCAATATCAGG
* ** *
811494 CTTAAAGATGAGAAGAATGATAAAGGTTCCAATATGCTAATTCAAGGCCAGTGATATTAGG
1 CTTAAAGATGAGAAGAATGATAAAGGTGCCAATATGCTAATTCAAGGCCAGCAATATCAGG
* * * * * * * *
811555 C-T-----T-A-AA-AATGACAAAGGTGCCAATGTGTTAATTCAAGGCCAACGACATTAGA
1 CTTAAAGATGAGAAGAATGATAAAGGTGCCAATATGCTAATTCAAGGCCAGCAATATCAGG
* * * *
811607 CTTGAAGATAAGAAGAATAATAAAGGTTCCAATATGCTAATTCAAGGC
1 CTTAAAGATGAGAAGAATGATAAAGGTGCCAATATGCTAATTCAAGGC
811655 TAACGATATT
Statistics
Matches: 130, Mismatches: 22, Indels: 18
0.76 0.13 0.11
Matches are distributed among these distances:
52 39 0.30
53 3 0.02
54 1 0.01
55 1 0.01
58 1 0.01
59 1 0.01
60 3 0.02
61 81 0.62
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (61 bp):
CTTAAAGATGAGAAGAATGATAAAGGTGCCAATATGCTAATTCAAGGCCAGCAATATCAGG
Found at i:811646 original size:113 final size:113
Alignment explanation
Indices: 811448--811654 Score: 306
Period size: 113 Copynumber: 1.8 Consensus size: 113
811438 GGATGTGAAG
* * * * * * * *
811448 AATGATAAAGGTGCCAATATGTTGATTCATGGCCAGCAATATCAGGCTTAAAGATGAGAAGAATG
1 AATGACAAAGGTGCCAATATGTTAATTCAAGGCCAACAACATCAGACTTAAAGATAAGAAGAATA
811513 ATAAAGGTTCCAATATGCTAATTCAAGGCCAGTGATATTAGGCTTAAA
66 ATAAAGGTTCCAATATGCTAATTCAAGGCCAGTGATATTAGGCTTAAA
* * * *
811561 AATGACAAAGGTGCCAATGTGTTAATTCAAGGCCAACGACATTAGACTTGAAGATAAGAAGAATA
1 AATGACAAAGGTGCCAATATGTTAATTCAAGGCCAACAACATCAGACTTAAAGATAAGAAGAATA
811626 ATAAAGGTTCCAATATGCTAATTCAAGGC
66 ATAAAGGTTCCAATATGCTAATTCAAGGC
811655 TAACGATATT
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
113 82 1.00
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.25
Consensus pattern (113 bp):
AATGACAAAGGTGCCAATATGTTAATTCAAGGCCAACAACATCAGACTTAAAGATAAGAAGAATA
ATAAAGGTTCCAATATGCTAATTCAAGGCCAGTGATATTAGGCTTAAA
Found at i:811758 original size:52 final size:51
Alignment explanation
Indices: 811688--812303 Score: 208
Period size: 52 Copynumber: 11.4 Consensus size: 51
811678 CCAATGTAGC
* *
811688 ATTCAAGGCTAGTGACATTGGACTTGAAGATGAGAAGA-ACGCCAATGTGCTG
1 ATTCAAGGCTAGCGACATTGGACTT-AAGATGA-AAGAGACGCCAATATGCTG
* * * *
811740 ATTCAAGGCTAGCAACATTGGGCTTAGGATTGACAA-AGATGCCAATATGCTG
1 ATTCAAGGCTAGCGACATTGGACTTAAGA-TGA-AAGAGACGCCAATATGCTG
* * * *
811792 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAAGATGACAAAGATGCCAATATACTT
1 ATTCAAGGCTAGCGACATTGGACTT-AAGATGAAAGA-GAC------GCCAATATGCTG
* ** * * * * * * * * *
811851 ATTTAAGGCCGGTGATATTGGACTTATGGAAGAAAAATATGCCAATGTGTTG
1 ATTCAAGGCTAGCGACATTGGACTTA-AGATGAAAGAGACGCCAATATGCTG
* * * * *
811903 ATTCAAGGCCAACGACGTTGGACTTGAAGATGAGAAGGATGAGGAAAGTGCCAATGTGCTG
1 ATTCAAGGCTAGCGACATTGGACTT-AAGAT--GAA--A-GA-G--A-CGCCAATATGCTG
* * * ** *
811964 ATTCAA-GTTAGCGACATTGGGCTTAGGAATGATAA-AGATTCCAATATGCTA
1 ATTCAAGGCTAGCGACATTGGACTTAAG-ATGA-AAGAGACGCCAATATGCTG
* * * ** *
812015 ATTCAAGGCCAGCAATATT-GATCTTAAAGATGACAA-AGGTGCCAATATGCTA
1 ATTCAAGGCTAGCGACATTGGA-CTT-AAGATGA-AAGAGACGCCAATATGCTG
* **
812067 ATTCAAGGCCT-GCGATATTGGACTTAATGATGAAAGATGACAAAGATGCCAATGCGCTG
1 ATTCAAGG-CTAGCGACATTGGACTTAA-GATGAAAGA-GAC------GCCAATATGCTG
* * * * * * * * * *
812126 TTTCAAGGCCAGCAATATTTGACTTATGGAAGAAA-AAAGTGCCAATTTGCTG
1 ATTCAAGGCTAGCGACATTGGACTTA-AGATGAAAGAGA-CGCCAATATGCTG
* **
812178 ATTCAAGGCTAGTGACATTGGACTTAAAGATGATAA-AGGTGCCAATATGCTG
1 ATTCAAGGCTAGCGACATTGGACTT-AAGATGA-AAGAGACGCCAATATGCTG
* * * * * * *
812230 ATTCAAGGCCAGCGATATTGGATTTAAAGAAAGAAAAATG-TGCCAATATGTTG
1 ATTCAAGGCTAGCGACATTGGACTT-AAG-ATGAAAGA-GACGCCAATATGCTG
812283 ATTCAAGGCTAGCGACATTGG
1 ATTCAAGGCTAGCGACATTGG
812304 GTTTAGAAAG
Statistics
Matches: 426, Mismatches: 92, Indels: 91
0.70 0.15 0.15
Matches are distributed among these distances:
51 27 0.06
52 221 0.52
53 51 0.12
54 5 0.01
55 1 0.00
56 1 0.00
57 3 0.01
58 6 0.01
59 77 0.18
60 16 0.04
61 18 0.04
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (51 bp):
ATTCAAGGCTAGCGACATTGGACTTAAGATGAAAGAGACGCCAATATGCTG
Found at i:811893 original size:111 final size:109
Alignment explanation
Indices: 811728--812303 Score: 418
Period size: 111 Copynumber: 5.3 Consensus size: 109
811718 TGAGAAGAAC
* * * * * *
811728 GCCAATGTGCTGATTCAAGGCTAGCAACATTGGGCTTA-GGATTGACAAAGATGCCAATATGCTG
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTATGGA-AGAAAAAGATGCCAATATGCTG
811792 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAAGATGACAAAGAT
65 ATTCAAGGCCAGCGATATTGGACTT-AAGATGAAAGATGACAAAG-T
* * * * * * * * *
811839 GCCAATATACTTATTTAAGGCCGGTGATATTGGACTTATGGAAGAAAAATATGCCAATGTGTTGA
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTATGGAAGAAAAAGATGCCAATATGCTGA
* ** *
811904 TTCAAGGCCAACGACGTTGGACTTGAAGATGAGAAGGATGAGGAAAGT
66 TTCAAGGCCAGCGATATTGGACTT-AAGATGA-AA-GATGA-CAAAGT
* ** * * * *
811952 GCCAATGTGCTGATTCAA-GTTAGCGACATTGGGCTTA-GGAATGATAAAGATTCCAATATGCTA
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTATGGAA-GAAAAAGATGCCAATATGCTG
*
812015 ATTCAAGGCCAGCAATATT-GA-TCT----T-AAAGATGACAAAGGT
65 ATTCAAGGCCAGCGATATTGGACT-TAAGATGAAAGATGACAAA-GT
* * *
812055 GCCAATATGCTAATTCAAGGCCTGCGATATTGGACTTAATGATGAAAGATGACAAAGATGCCAAT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT-ATG--G-AAGA--A-AAAGATGCCAAT
** * * * * *
812120 GCGCTGTTTCAAGGCCAGCAATATTTGACTT---ATGGAAGA--AAAAAGT
59 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAGATGAAAGATGACAAAGT
* * * ** * * *
812166 GCCAATTTGCTGATTCAAGGCTAGTGACATTGGACTTAAAGATGATAAAGGTGCCAATATGCTGA
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTATGGAAGAAAAAGATGCCAATATGCTGA
*
812231 TTCAAGGCCAGCGATATTGGATTTAA-A-GAAAGA--A-AAATGT
66 TTCAAGGCCAGCGATATTGGACTTAAGATGAAAGATGACAAA-GT
* *
812271 GCCAATATGTTGATTCAAGGCTAGCGACATTGG
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGG
812304 GTTTAGAAAG
Statistics
Matches: 365, Mismatches: 77, Indels: 52
0.74 0.16 0.11
Matches are distributed among these distances:
102 3 0.01
103 23 0.06
104 54 0.15
105 40 0.11
106 3 0.01
107 3 0.01
108 4 0.01
109 2 0.01
110 2 0.01
111 146 0.40
112 55 0.15
113 22 0.06
114 8 0.02
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (109 bp):
GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTATGGAAGAAAAAGATGCCAATATGCTGA
TTCAAGGCCAGCGATATTGGACTTAAGATGAAAGATGACAAAGT
Found at i:812132 original size:59 final size:59
Alignment explanation
Indices: 812040--812151 Score: 152
Period size: 59 Copynumber: 1.9 Consensus size: 59
812030 TATTGATCTT
* * * *
812040 AAAGATGACAAAGGTGCCAATATGCTAATTCAAGGCCTGCGATATTGGACTTAATGATG
1 AAAGATGACAAAGATGCCAATACGCTAATTCAAGGCCAGCAATATTGGACTTAATGATG
* ** *
812099 AAAGATGACAAAGATGCCAATGCGCTGTTTCAAGGCCAGCAATATTTGACTTA
1 AAAGATGACAAAGATGCCAATACGCTAATTCAAGGCCAGCAATATTGGACTTA
812152 TGGAAGAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
59 45 1.00
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (59 bp):
AAAGATGACAAAGATGCCAATACGCTAATTCAAGGCCAGCAATATTGGACTTAATGATG
Found at i:812349 original size:32 final size:31
Alignment explanation
Indices: 812301--812374 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 31
812291 CTAGCGACAT
*
812301 TGGG-TTTAGAAAGGTTGCCACCGACTTGTA
1 TGGGCTTTAGAAAGGTTGCCACCAACTTGTA
* * *
812331 TGGGCTTTAGGAAGGGTTGCCATCAACTTGTG
1 TGGGCTTTA-GAAAGGTTGCCACCAACTTGTA
812363 TGGGCTTT-GAAA
1 TGGGCTTTAGAAA
812375 TGAAAAAAGT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
30 7 0.19
31 4 0.11
32 26 0.70
ACGTcount: A:0.22, C:0.15, G:0.32, T:0.31
Consensus pattern (31 bp):
TGGGCTTTAGAAAGGTTGCCACCAACTTGTA
Found at i:812429 original size:61 final size:61
Alignment explanation
Indices: 812361--812529 Score: 241
Period size: 61 Copynumber: 2.8 Consensus size: 61
812351 CATCAACTTG
* * *
812361 TGTGGGCTTTGAAATGAAAAAAGTGCCACGAAGTTATGGACTTAAAAGGGTACCACGGAGT
1 TGTGGGCTTTGAAAAGAAAAATGTGCCACGAAGTTATGGACTTAAAAGGGTACCACGAAGT
* *
812422 TGTGGGCTTTGAAAAGAAAAATGTGCCAC-AGAGTTATGCACTTAAAAGGGTGCCACGAAGT
1 TGTGGGCTTTGAAAAGAAAAATGTGCCACGA-AGTTATGGACTTAAAAGGGTACCACGAAGT
* * * *
812483 TGTGGGCTTTGAAAAGAAAAATGTGTCACGGAGTTGTGGACTGAAAA
1 TGTGGGCTTTGAAAAGAAAAATGTGCCACGAAGTTATGGACTTAAAA
812530 AGAAAAAGGG
Statistics
Matches: 96, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
60 1 0.01
61 95 0.99
ACGTcount: A:0.34, C:0.12, G:0.30, T:0.24
Consensus pattern (61 bp):
TGTGGGCTTTGAAAAGAAAAATGTGCCACGAAGTTATGGACTTAAAAGGGTACCACGAAGT
Found at i:812577 original size:33 final size:32
Alignment explanation
Indices: 812376--812577 Score: 138
Period size: 33 Copynumber: 6.4 Consensus size: 32
812366 GCTTTGAAAT
* *
812376 GAAAAAAGTGCCACGAAGTTATGGACTTAAAA
1 GAAAAAGGTGCCACGAAGTTGTGGACTTAAAA
* * *
812408 G-----GGTACCACGGAGTTGTGGGCTTTGAAAA
1 GAAAAAGGTGCCACGAAGTTGTGGAC-TT-AAAA
* * *
812437 GAAAAATGTGCCAC-AGAGTTATGCACTTAAAA
1 GAAAAAGGTGCCACGA-AGTTGTGGACTTAAAA
*
812469 G-----GGTGCCACGAAGTTGTGGGCTTTGAAAA
1 GAAAAAGGTGCCACGAAGTTGTGGAC-TT-AAAA
* * * *
812498 GAAAAATGTGTCACGGAGTTGTGGACTGAAAAA
1 GAAAAAGGTGCCACGAAGTTGTGGACT-TAAAA
*
812531 GAAAAAGGGGCCACGAAGTTGTGGACTTAAAA
1 GAAAAAGGTGCCACGAAGTTGTGGACTTAAAA
812563 GAAAAAGGATGCCAC
1 GAAAAAGG-TGCCAC
812578 TGAGTCATGT
Statistics
Matches: 126, Mismatches: 26, Indels: 35
0.67 0.14 0.19
Matches are distributed among these distances:
27 29 0.23
28 5 0.04
29 10 0.08
32 18 0.14
33 35 0.28
34 29 0.23
ACGTcount: A:0.38, C:0.13, G:0.29, T:0.20
Consensus pattern (32 bp):
GAAAAAGGTGCCACGAAGTTGTGGACTTAAAA
Found at i:812604 original size:30 final size:30
Alignment explanation
Indices: 812565--812643 Score: 124
Period size: 30 Copynumber: 2.7 Consensus size: 30
812555 ACTTAAAAGA
* *
812565 AAAAG-GATGCCACTGAGTCATGTACTTGG
1 AAAAGAGATGCCACTAAGTCATGGACTTGG
812594 AAAAGAGATGCCACTAAGTCATGGACTTGG
1 AAAAGAGATGCCACTAAGTCATGGACTTGG
*
812624 AAAAGAGATGCTACTAAGTC
1 AAAAGAGATGCCACTAAGTC
812644 GTGGGCTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 5 0.11
30 41 0.89
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (30 bp):
AAAAGAGATGCCACTAAGTCATGGACTTGG
Found at i:813632 original size:16 final size:16
Alignment explanation
Indices: 813607--813642 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
813597 TCTCACCAAG
813607 TTTT-TTTTGTGTTTT
1 TTTTGTTTTGTGTTTT
*
813622 TTTTGTTTTGTTTTTT
1 TTTTGTTTTGTGTTTT
813638 TTTTG
1 TTTTG
813643 AAAAGAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (16 bp):
TTTTGTTTTGTGTTTT
Found at i:813633 original size:14 final size:13
Alignment explanation
Indices: 813607--813642 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
813597 TCTCACCAAG
813607 TTTTTTTTGTGTT
1 TTTTTTTTGTGTT
*
813620 TTTTTTGTTTTGTT
1 TTTTTT-TTGTGTT
813634 TTTTTTTTG
1 TTTTTTTTG
813643 AAAAGAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (13 bp):
TTTTTTTTGTGTT
Found at i:813896 original size:20 final size:19
Alignment explanation
Indices: 813859--813921 Score: 60
Period size: 18 Copynumber: 3.3 Consensus size: 19
813849 TGTTGTTCCA
813859 TTTTTTATTTTGCCTTTGTAC
1 TTTTTT-TTTTG-CTTTGTAC
**
813880 TTTTTTTCTTTTTTTTGT--
1 TTTTTTT-TTTGCTTTGTAC
813898 TTTTTTTTTTGCTTTG-AC
1 TTTTTTTTTTGCTTTGTAC
813916 TTTTTT
1 TTTTTT
813922 ATCATTTTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
17 7 0.20
18 13 0.37
20 6 0.17
21 9 0.26
ACGTcount: A:0.05, C:0.10, G:0.08, T:0.78
Consensus pattern (19 bp):
TTTTTTTTTTGCTTTGTAC
Found at i:819300 original size:79 final size:79
Alignment explanation
Indices: 819169--819712 Score: 619
Period size: 79 Copynumber: 6.9 Consensus size: 79
819159 TCATTCACGT
* * * *
819169 TTTTATTTCCAAAACACCATTTTTTCATAATCGAGAATACTCCAACCTCGTTATTTCCGAGGGGA
1 TTTTATTTCCAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCCGTTATTTCCGAGGGGA
*
819234 TACTCCAA-CCTGAG
66 TACTCCAACCCCG-G
* * * * *
819248 TTTTATTTCCAAAATACCAATTTTTCACAATCAAGGATACTCTAACCCCGTTATTTTCGAAGGGA
1 TTTTATTTCCAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCCGTTATTTCCGAGGGGA
* *
819313 TACTCTAATCCCGG
66 TACTCCAACCCCGG
* * * *
819327 TTTTATTTCCAAAACACTAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
1 TTTTATTTCCAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCCGTTATTTCCGAGGGGA
819392 TACTCCAACCCCGG
66 TACTCCAACCCCGG
* * * * * *
819406 TTTTATTTTCGAAACACCAATTTTTCACAATCTAGGATACTCCAACCTCGTTGTTTCCTAGGGGA
1 TTTTATTTCCAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCCGTTATTTCCGAGGGGA
* *
819471 TACTCCAACCTCGC
66 TACTCCAACCCCGG
* * * **
819485 TTTTGTTTCCAAAACACCAATTTTTCACATTCGAGAATACTCCAACCCC-TTATTTCTAAGGGGA
1 TTTTATTTCCAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCCGTTATTTCCGAGGGGA
* *
819549 TACTCTAACCCCGA
66 TACTCCAACCCCGG
* * * * * *
819563 TTTTATTTTCAAAACACCAATTTTCCACAATCGGGGATACTCTAACCTCGTTATTTCCAAGGGGA
1 TTTTATTTCCAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCCGTTATTTCCGAGGGGA
* * *
819628 TACTCCAACTCTGA
66 TACTCCAACCCCGG
* * * * * *
819642 TTTTATTTCCAAAACATCAATTTTCCACCATTG-GGTATACTCTAACCCCGTTATTTCTGAAGGG
1 TTTTATTTCCAAAACACCAATTTTTCACAATCGAGG-ATACTCCAACCCCGTTATTTCCG-AGGG
819706 G-TACTCC
64 GATACTCC
819713 CGTTTTTATC
Statistics
Matches: 397, Mismatches: 64, Indels: 8
0.85 0.14 0.02
Matches are distributed among these distances:
78 66 0.17
79 323 0.81
80 8 0.02
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.33
Consensus pattern (79 bp):
TTTTATTTCCAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCCGTTATTTCCGAGGGGA
TACTCCAACCCCGG
Found at i:827666 original size:238 final size:238
Alignment explanation
Indices: 827248--827727 Score: 942
Period size: 238 Copynumber: 2.0 Consensus size: 238
827238 GATGAGGCAA
827248 TCTTTGGGTCAAGAAGAGGAATTAAAATCAACAATGTTCCCACCACTCTATAAGACATTCTGCTT
1 TCTTTGGGTCAAGAAGAGGAATTAAAATCAACAATGTTCCCACCACTCTATAAGACATTCTGCTT
*
827313 AGGAGGATGAACTAATTCACACCAACCAGAAAAGTAGAAGGCTACAGTGTCTTGGTCAGCTTAAA
66 AGGAGGATGAACCAATTCACACCAACCAGAAAAGTAGAAGGCTACAGTGTCTTGGTCAGCTTAAA
827378 TAAAGCAATCCATAACCTTTATCTCCAAGATACCGAGCCATAAAACTTGTGCCTTTCCTGTAAGA
131 TAAAGCAATCCATAACCTTTATCTCCAAGATACCGAGCCATAAAACTTGTGCCTTTCCTGTAAGA
827443 CCTAATCTTGACAATGGGATCATGGCGAAAACCCCTGCACTTT
196 CCTAATCTTGACAATGGGATCATGGCGAAAACCCCTGCACTTT
827486 TCTTTGGGTCAAGAAGAGGAATTAAAATCAACAATGTTCCCACCACTCTATAAGACATTCTGCTT
1 TCTTTGGGTCAAGAAGAGGAATTAAAATCAACAATGTTCCCACCACTCTATAAGACATTCTGCTT
*
827551 AGGAGGATGAACCAATTCACACCAACCAGAAAAGTAGAAGGCTACGGTGTCTTGGTCAGCTTAAA
66 AGGAGGATGAACCAATTCACACCAACCAGAAAAGTAGAAGGCTACAGTGTCTTGGTCAGCTTAAA
827616 TAAAGCAATCCATAACCTTTATCTCCAAGATACCGAGCCATAAAACTTGTGCCTTTCCTGTAAGA
131 TAAAGCAATCCATAACCTTTATCTCCAAGATACCGAGCCATAAAACTTGTGCCTTTCCTGTAAGA
827681 CCTAATCTTGACAATGGGATCATGGCGAAAACCCCTGCACTTT
196 CCTAATCTTGACAATGGGATCATGGCGAAAACCCCTGCACTTT
827724 TCTT
1 TCTT
827728 GTTCATTAGA
Statistics
Matches: 240, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
238 240 1.00
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (238 bp):
TCTTTGGGTCAAGAAGAGGAATTAAAATCAACAATGTTCCCACCACTCTATAAGACATTCTGCTT
AGGAGGATGAACCAATTCACACCAACCAGAAAAGTAGAAGGCTACAGTGTCTTGGTCAGCTTAAA
TAAAGCAATCCATAACCTTTATCTCCAAGATACCGAGCCATAAAACTTGTGCCTTTCCTGTAAGA
CCTAATCTTGACAATGGGATCATGGCGAAAACCCCTGCACTTT
Found at i:831477 original size:8 final size:8
Alignment explanation
Indices: 831456--831564 Score: 82
Period size: 8 Copynumber: 13.0 Consensus size: 8
831446 TCCTTCGTAC
831456 CAAAAAAA
1 CAAAAAAA
*
831464 TGAAAAAAA
1 -CAAAAAAA
831473 CAAAAAAA
1 CAAAAAAA
831481 -AAACAGAAA
1 CAAA-A-AAA
*
831490 -AAACTAAGA
1 CAAA--AAAA
831499 -AAAAAAA
1 CAAAAAAA
831506 C-AAAAAA
1 CAAAAAAA
831513 CAAAAAAA
1 CAAAAAAA
831521 CAGAAAAAA
1 CA-AAAAAA
831530 CCAAAAACAAA
1 -C-AAAA-AAA
831541 CAAAAAAA
1 CAAAAAAA
*
831549 CAAACAAA
1 CAAAAAAA
831557 CAAAAAAA
1 CAAAAAAA
831565 GGGTCCATAT
Statistics
Matches: 84, Mismatches: 7, Indels: 19
0.76 0.06 0.17
Matches are distributed among these distances:
7 13 0.15
8 33 0.39
9 28 0.33
10 6 0.07
11 4 0.05
ACGTcount: A:0.82, C:0.13, G:0.04, T:0.02
Consensus pattern (8 bp):
CAAAAAAA
Found at i:831482 original size:20 final size:19
Alignment explanation
Indices: 831457--831565 Score: 87
Period size: 20 Copynumber: 5.5 Consensus size: 19
831447 CCTTCGTACC
*
831457 AAAAAAATGAAAAAAACAA
1 AAAAAAAAGAAAAAAACAA
*
831476 AAAAAAAACAGAAAAAACTAA
1 AAAAAAAAGA-AAAAAAC-AA
*
831497 GAAAAAAAA-CAAAAAAC-A
1 -AAAAAAAAGAAAAAAACAA
* *
831515 AAAAAACAGAAAAAACCAA
1 AAAAAAAAGAAAAAAACAA
*
831534 AAACAAACAAAAAAACAAACAA
1 AAA-AAA-AAGAAAA-AAACAA
831556 ACAAAAAAAG
1 A-AAAAAAAG
831566 GGTCCATATG
Statistics
Matches: 71, Mismatches: 10, Indels: 16
0.73 0.10 0.16
Matches are distributed among these distances:
17 7 0.10
18 7 0.10
19 12 0.17
20 17 0.24
21 9 0.13
22 17 0.24
23 2 0.03
ACGTcount: A:0.82, C:0.12, G:0.05, T:0.02
Consensus pattern (19 bp):
AAAAAAAAGAAAAAAACAA
Found at i:831490 original size:28 final size:27
Alignment explanation
Indices: 831456--831564 Score: 121
Period size: 28 Copynumber: 3.9 Consensus size: 27
831446 TCCTTCGTAC
*
831456 CAAAAAAATGAAAAAAACAAAAAAAAAA
1 CAAAAAAA-CAAAAAAACAAAAAAAAAA
*
831484 CAGAAAAAACTAAGAAAAA-AAACAAAAAA
1 CA-AAAAAAC-AA-AAAAACAAAAAAAAAA
* *
831513 CAAAAAAACAGAAAAAACCAAAAACAAA
1 CAAAAAAACA-AAAAAACAAAAAAAAAA
*
831541 CAAAAAAACAAACAAACAAAAAAA
1 CAAAAAAACAAAAAAACAAAAAAA
831565 GGGTCCATAT
Statistics
Matches: 68, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
27 17 0.25
28 27 0.40
29 19 0.28
30 5 0.07
ACGTcount: A:0.82, C:0.13, G:0.04, T:0.02
Consensus pattern (27 bp):
CAAAAAAACAAAAAAACAAAAAAAAAA
Found at i:831527 original size:37 final size:36
Alignment explanation
Indices: 831456--831564 Score: 118
Period size: 37 Copynumber: 3.0 Consensus size: 36
831446 TCCTTCGTAC
831456 CAAAAAAATGAAA-AAAACAAA-AAAAAAACAGAAAAAA
1 CAAAAAAA--AAACAAAA-AAACAAAAAAACAGAAAAAA
831493 CTAAGAAAAAAAAC-AAAAAACAAAAAAACAGAAAAAA
1 C-AA-AAAAAAAACAAAAAAACAAAAAAACAGAAAAAA
* * *
831530 CCAAAAACAAACAAAAAAACAAACAAACA-AAAAAA
1 CAAAAAAAAAACAAAAAAACAAAAAAACAGAAAAAA
831565 GGGTCCATAT
Statistics
Matches: 64, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
35 14 0.22
36 19 0.30
37 24 0.38
38 2 0.03
39 5 0.08
ACGTcount: A:0.82, C:0.13, G:0.04, T:0.02
Consensus pattern (36 bp):
CAAAAAAAAAACAAAAAAACAAAAAAACAGAAAAAA
Found at i:832359 original size:28 final size:28
Alignment explanation
Indices: 832327--832801 Score: 538
Period size: 28 Copynumber: 16.5 Consensus size: 28
832317 GAGTTGTGGG
* * * *
832327 CTTTCAAAGCCCATAAATCAGTGCCATC
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
832355 CTTTCAAAGCCCACAAGTCAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
*
832383 CTTTCAAAGCCCACAAGTCAGTGGCATTC
1 CTTTCAAAGCCCACAAGTCAGTGGCA-CC
* * *
832412 C-TTCAAAAGACCACAACTTAGTGGCACC
1 CTTTC-AAAGCCCACAAGTCAGTGGCACC
832440 CTTTCAAAGCCCACAAGTCAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
*
832468 TTTTCAAAGCCCACAAGTCAGTGGCATACC
1 CTTTCAAAGCCCACAAGTCAGTGGC--ACC
* *
832498 CTTCCAAAGCCCACACAAATCAGTGGCACC
1 CTTTCAAAG-CC-CACAAGTCAGTGGCACC
* * *
832528 CTTCCAAAGCCCACAACTCAATGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
* * *
832556 CTTCCAAAGCCCACATGTTAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
* *
832584 CTTTCAAAGCCTACAAGTCAGTGGCATC
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
*
832612 CTTTCAAAGCCCACAAGTCAGTGGCATTC
1 CTTTCAAAGCCCACAAGTCAGTGGCA-CC
* ** *
832641 CTTTAAAAAACCACAAGTTAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
* *
832669 CTTTCAAATCCCACAGGTCAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
*
832697 CTTTCAAAGCCCACAAGTCAGTGGCATACT
1 CTTTCAAAGCCCACAAGTCAGTGGC--ACC
* *
832727 TTTTCAAAGCCCATAAGTCAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACC
**
832755 CTTTCAAAGCCCACACAAGTTGGTGGCAACTC
1 CTTTCAAAG-CC-CACAAGTCAGTGGC-AC-C
*
832787 TTTTCAAAGCCCACA
1 CTTTCAAAGCCCACA
832802 CAAGTTAGTA
Statistics
Matches: 384, Mismatches: 49, Indels: 26
0.84 0.11 0.06
Matches are distributed among these distances:
28 243 0.63
29 51 0.13
30 62 0.16
31 6 0.02
32 22 0.06
ACGTcount: A:0.30, C:0.33, G:0.16, T:0.21
Consensus pattern (28 bp):
CTTTCAAAGCCCACAAGTCAGTGGCACC
Found at i:832457 original size:85 final size:84
Alignment explanation
Indices: 832327--832801 Score: 538
Period size: 85 Copynumber: 5.5 Consensus size: 84
832317 GAGTTGTGGG
* * * *
832327 CTTTCAAAGCCCATAAATCAGTGCCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
1 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
*
832392 CCCACAAGTCAGTGGCATTC
66 CCCACAAGTCAGTGGCA-CC
* * * *
832412 C-TTCAAAAGACCACAACTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAA
1 CTTTC-AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
832476 GCCCACAAGTCAGTGGCATACC
65 GCCCACAAGTCAGTGGC--ACC
* * * * * *
832498 CTTCCAAAGCCCACACAAATCAGTGGCACCCTTCCAAAGCCCACAACTCAATGGCACCCTTCCAA
1 CTTTCAAAG-CC-CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
* *
832563 AGCCCACATGTTAGTGGCACC
64 AGCCCACAAGTCAGTGGCACC
* * * *
832584 CTTTCAAAGCCTACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATTCCTTTAAAA
1 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCAAA
** *
832649 AACCACAAGTTAGTGGCACC
65 GCCCACAAGTCAGTGGCACC
* * **
832669 CTTTCAAATCCCACAGGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATACTTTTTCAA
1 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC--ACCCTTTCAA
*
832734 AGCCCATAAGTCAGTGGCACC
64 AGCCCACAAGTCAGTGGCACC
** *
832755 CTTTCAAAGCCCACACAAGTTGGTGGCAACTCTTTTCAAAGCCCACA
1 CTTTCAAAG-CC-CACAAGTCAGTGGC-AC-CCTTTCAAAGCCCACA
832802 CAAGTTAGTA
Statistics
Matches: 328, Mismatches: 49, Indels: 21
0.82 0.12 0.05
Matches are distributed among these distances:
84 40 0.12
85 145 0.44
86 47 0.14
87 7 0.02
88 72 0.22
89 2 0.01
90 15 0.05
ACGTcount: A:0.30, C:0.33, G:0.16, T:0.21
Consensus pattern (84 bp):
CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
CCCACAAGTCAGTGGCACC
Found at i:832737 original size:229 final size:227
Alignment explanation
Indices: 832354--832769 Score: 688
Period size: 229 Copynumber: 1.8 Consensus size: 227
832344 TCAGTGCCAT
832354 CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATTCCTTCAAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATTCCTTCAAA
* *
832419 AGACCACAACTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAA
66 AAACCACAACTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAA
832484 GTCAGTGGCATACCCTTCCAAAGCCCACACAAATCAGTGGCACCCTTCCAAAGCCCACAACTCAA
131 GTCAGTGGCATACCCTTCCAAAG-CC-CACAAATCAGTGGCACCCTTCCAAAGCCCACAACTCAA
832549 TGGCACCCTTCCAAAGCCCACATGTTAGTGGCAC
194 TGGCACCCTTCCAAAGCCCACATGTTAGTGGCAC
* * *
832583 CCTTTCAAAGCCTACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATTCCTTTAAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATTCCTTCAAA
* * *
832648 AAACCACAAGTTAGTGGCACCCTTTCAAATCCCACAGGTCAGTGGCACCCTTTCAAAGCCCACAA
66 AAACCACAACTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAA
** * * * *
832713 GTCAGTGGCATACTTTTTCAAAGCCCATAAGTCAGTGGCACCCTTTCAAAGCCCACA
131 GTCAGTGGCATACCCTTCCAAAGCCCACAAATCAGTGGCACCCTTCCAAAGCCCACA
832770 CAAGTTGGTG
Statistics
Matches: 173, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
227 29 0.17
228 2 0.01
229 142 0.82
ACGTcount: A:0.30, C:0.33, G:0.16, T:0.21
Consensus pattern (227 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATTCCTTCAAA
AAACCACAACTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAA
GTCAGTGGCATACCCTTCCAAAGCCCACAAATCAGTGGCACCCTTCCAAAGCCCACAACTCAATG
GCACCCTTCCAAAGCCCACATGTTAGTGGCAC
Found at i:833702 original size:20 final size:20
Alignment explanation
Indices: 833677--833752 Score: 98
Period size: 20 Copynumber: 3.8 Consensus size: 20
833667 TTTTTACCCA
833677 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTTTTC
* * *
833697 AATGTATCGATACATGTATG
1 AATGTATCGATACATTTTTC
** *
833717 AATGTATCGATGGATTCTTC
1 AATGTATCGATACATTTTTC
833737 AATGTATCGATACATT
1 AATGTATCGATACATT
833753 CTGTCTTTTT
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTTTTC
Found at i:837344 original size:15 final size:15
Alignment explanation
Indices: 837309--837346 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
837299 AAAAAAAAAC
837309 AAAAAAAATGAACAA
1 AAAAAAAATGAACAA
*
837324 CAAAAAAATGAA-AA
1 AAAAAAAATGAACAA
837338 AAGAAAAAA
1 AA-AAAAAA
837347 AAAAGAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 3 0.15
15 17 0.85
ACGTcount: A:0.82, C:0.05, G:0.08, T:0.05
Consensus pattern (15 bp):
AAAAAAAATGAACAA
Found at i:837347 original size:16 final size:15
Alignment explanation
Indices: 837303--837338 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
837293 TTTTTCAAAA
837303 AAAAACAAAAAAAATG
1 AAAAAC-AAAAAAATG
*
837319 AACAACAAAAAAATG
1 AAAAACAAAAAAATG
837334 AAAAA
1 AAAAA
837339 AGAAAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.81, C:0.08, G:0.06, T:0.06
Consensus pattern (15 bp):
AAAAACAAAAAAATG
Found at i:838405 original size:61 final size:60
Alignment explanation
Indices: 838334--839001 Score: 722
Period size: 61 Copynumber: 11.0 Consensus size: 60
838324 GAGTAGGATG
*
838334 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGTAGGACA
1 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTCAGTCCTCAAAGAGCAGGACA
* * * * *
838395 CCTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCACCTTCTAGTCCCCAAAGAGCCGGATGA
1 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC-AGTCCTCAAAGAGCAGGA-CA
* * * *
838457 -ATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCC-CTAAAGAGTAGGACG
1 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC-AGTCCTC-AAAGAGCAGGACA
* * * * *
838517 CCTTTTCCTTTTAAAGCCTACACCAGTTGGTGGCACCTTCCAGTTCTTAAAGAGCAGGAC-
1 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACA
* * * * * *
838577 GC-TTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAAAGTAGGACT
1 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC-AGTCCTCAAAGAGCAGGACA
* *
838637 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCACGACA
1 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACA
* * * * **
838698 -CTTTT-CTTTCAAAGTCCACACAGGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATG
1 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACA
* * *
838757 CCTTTTCCTTTTAAAGCCCACACAAGTTAGTGGAACCTTCTAGTCCTCAAAGAGCAGGACA
1 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC-AGTCCTCAAAGAGCAGGACA
* * **
838818 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCGAAA-AGTACGATG
1 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTCAGTCCTC-AAAGAGCAGGACA
* * * *
838879 CCTGTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCGGTCCTCAAAGAGCAGGA-T
1 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACA
* *** * * *
838939 GCTTTCTCCTCGCAAAGCCCATACAAGTTGGTGGCACCTTCTAGTCCCCAAAGAGCAGGACA
1 CCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC-AGTCCTCAAAGAGCAGGACA
839001 C
1 C
839002 ATTTAATTTC
Statistics
Matches: 507, Mismatches: 80, Indels: 39
0.81 0.13 0.06
Matches are distributed among these distances:
58 3 0.01
59 90 0.18
60 28 0.06
61 371 0.73
62 15 0.03
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (60 bp):
CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACA
Found at i:838470 original size:122 final size:121
Alignment explanation
Indices: 838335--838999 Score: 835
Period size: 122 Copynumber: 5.5 Consensus size: 121
838325 AGTAGGATGC
* * *
838335 CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTCAGTCCTCAAAGAGTAGGACACCTT
1 CTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT-AGTCCTCAAAGAGTAGGACGCCTT
* * *
838399 TTCCTTTTAAAGCCTACACAAGTTGGTGGCACCTTCTAGTCCCCAAAGAGCCGGATGA
65 TTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGA-GA
* *
838457 ATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCC-CTAAAGAGTAGGACGCCTT
1 CTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTC-AAAGAGTAGGACGCCTT
* * * * *
838521 TTCCTTTTAAAGCCTACACCAGTTGGTGGCACCTTCCAGTTCTTAAAGAGCAGGACG-
65 TTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGA-GA
* *
838578 C-TTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAAAGTAGGACTCCTTT
1 CTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGTAGGACGCCTTT
* * *
838642 TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-TCAGTCCCCAAAGAGCACGACA
66 TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT-AGTCCTCAAAGAGCAGGAGA
* * * * *
838698 CTTTT-CTTTCAAAGTCCACACAGGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCTTT
1 CTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGTAGGACGCCTTT
* * *
838762 TCCTTTTAAAGCCCACACAAGTTAGTGGAACCTTCTAGTCCTCAAAGAGCAGGACA
66 TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGAGA
* * * *
838818 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTCAGTCCTCGAAA-AGTACGATGCC
1 -CTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT-AGTCCTC-AAAGAGTAGGACGCC
* **
838881 TGTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCGGTCCTCAAAGAGCAGGATG-
63 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGA-GA
** * * *
838940 CTTTCTCCTCGCAAAGCCCATACAAGTTGGTGGCACCTTCTAGTCCCCAAAGAGCAGGAC
1 CTTT-TCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGTAGGAC
839000 ACATTTAATT
Statistics
Matches: 475, Mismatches: 53, Indels: 30
0.85 0.09 0.05
Matches are distributed among these distances:
120 207 0.44
121 23 0.05
122 234 0.49
123 11 0.02
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (121 bp):
CTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGTAGGACGCCTTT
TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGAGA
Found at i:839100 original size:78 final size:75
Alignment explanation
Indices: 839010--839157 Score: 206
Period size: 78 Copynumber: 1.9 Consensus size: 75
839000 ACATTTAATT
* * * *
839010 TCCTTTTTCCTTTGTCCTCAAAAAGTAGGACGCATTTTATTTCCTTTTTTTCCTTTATTCTCGAA
1 TCCTTTTTCCTTTGTCCTCAAAAAGCAGGACCCATTTCA-TT-C-TTTTTTCCTTTATCCTCGAA
839075 GAGCAGGATGCAC
63 GAGCAGGATGCAC
** *
839088 TCCTTTTTCCTTTGTCCTCAAGGAGCAGGACCCATTTCATTCTTTTTTCCTTTGTCCTCGAAGAG
1 TCCTTTTTCCTTTGTCCTCAAAAAGCAGGACCCATTTCATTCTTTTTTCCTTTATCCTCGAAGAG
839153 CAGGA
66 CAGGA
839158 CGCATTTTAT
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
75 26 0.41
76 1 0.02
77 2 0.03
78 34 0.54
ACGTcount: A:0.19, C:0.25, G:0.16, T:0.41
Consensus pattern (75 bp):
TCCTTTTTCCTTTGTCCTCAAAAAGCAGGACCCATTTCATTCTTTTTTCCTTTATCCTCGAAGAG
CAGGATGCAC
Found at i:839158 original size:118 final size:118
Alignment explanation
Indices: 838982--839275 Score: 419
Period size: 118 Copynumber: 2.5 Consensus size: 118
838972 GCACCTTCTA
* * * * * * *
838982 GTCCCCAAAGAGCAGGACACATTTAATTTCCTTTTTCCTTTGTCCTCAAAAAGTAGGACGCATTT
1 GTCCTCAAGGAGCAGGACCCATTTCA-TTCTTTTTTCCTTTGTCCTCGAAAAGCAGGACGCATTT
* *
839047 TATTTCCTTTTTTTCCTTTAT-TCTCGAAGAGCAGGATGCACTCCTTTTTCCTTT
65 TATTTCCTTTTTTTCCTTTGTCCCT-GAAGAGCAGGATGCACTCCTTTTTCCTTT
*
839101 GTCCTCAAGGAGCAGGACCCATTTCATTCTTTTTTCCTTTGTCCTCGAAGAGCAGGACGCATTTT
1 GTCCTCAAGGAGCAGGACCCATTTCATTCTTTTTTCCTTTGTCCTCGAAAAGCAGGACGCATTTT
* * *
839166 ATTTCCTTTTTTTCCTTTGTCCCTGAAGAGTAGGATGTACTCTTTTTTCCTTT
66 ATTTCCTTTTTTTCCTTTGTCCCTGAAGAGCAGGATGCACTCCTTTTTCCTTT
* * *
839219 ATCCTCAAGGAGCAGGGCCCATTTCATTCTCTTTTCCTTTGTCCTCGAAAAGCAGGA
1 GTCCTCAAGGAGCAGGACCCATTTCATTCTTTTTTCCTTTGTCCTCGAAAAGCAGGA
839276 TGTGCTCCTT
Statistics
Matches: 157, Mismatches: 17, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
118 133 0.85
119 24 0.15
ACGTcount: A:0.20, C:0.25, G:0.16, T:0.39
Consensus pattern (118 bp):
GTCCTCAAGGAGCAGGACCCATTTCATTCTTTTTTCCTTTGTCCTCGAAAAGCAGGACGCATTTT
ATTTCCTTTTTTTCCTTTGTCCCTGAAGAGCAGGATGCACTCCTTTTTCCTTT
Found at i:839186 original size:43 final size:40
Alignment explanation
Indices: 838989--839275 Score: 195
Period size: 40 Copynumber: 7.2 Consensus size: 40
838979 CTAGTCCCCA
* * * *
838989 AAGAGCAGGACACATTTAATTTCCTTTTTCCTTTGTCCTCA
1 AAGAGCAGGACCCATTTCA-TTCTTTTTTCCTTTGTCCTCG
* * * * * *
839030 AAAAGTAGGACGCATTTTATTTCCTTTTTTTCCTTTATTCTCG
1 AAGAGCAGGACCCATTTCA-TT-C-TTTTTTCCTTTGTCCTCG
* * *
839073 AAGAGCAGG----A-TGCACTCCTTTTTCCTTTGTCCTC-
1 AAGAGCAGGACCCATTTCATTCTTTTTTCCTTTGTCCTCG
839107 AAGGAGCAGGACCCATTTCATTCTTTTTTCCTTTGTCCTCG
1 AA-GAGCAGGACCCATTTCATTCTTTTTTCCTTTGTCCTCG
* *
839148 AAGAGCAGGACGCATTTTATTTCCTTTTTTTCCTTTGTCC-CTG
1 AAGAGCAGGACCCATTTCA-TT-C-TTTTTTCCTTTGTCCTC-G
* * * *
839191 AAGAGTAGG----ATGT-ACTCTTTTTTCCTTTATCCTC-
1 AAGAGCAGGACCCATTTCATTCTTTTTTCCTTTGTCCTCG
* *
839225 AAGGAGCAGGGCCCATTTCATTCTCTTTTCCTTTGTCCTCG
1 AA-GAGCAGGACCCATTTCATTCTTTTTTCCTTTGTCCTCG
*
839266 AAAAGCAGGA
1 AAGAGCAGGA
839276 TGTGCTCCTT
Statistics
Matches: 193, Mismatches: 32, Indels: 43
0.72 0.12 0.16
Matches are distributed among these distances:
34 4 0.02
35 41 0.21
36 3 0.02
37 2 0.01
38 3 0.02
39 8 0.04
40 60 0.31
41 24 0.12
42 3 0.02
43 45 0.23
ACGTcount: A:0.20, C:0.24, G:0.16, T:0.40
Consensus pattern (40 bp):
AAGAGCAGGACCCATTTCATTCTTTTTTCCTTTGTCCTCG
Found at i:839224 original size:78 final size:75
Alignment explanation
Indices: 839128--839312 Score: 214
Period size: 78 Copynumber: 2.4 Consensus size: 75
839118 CCCATTTCAT
* *
839128 TCTTTTTTCCTTTGTCCTCGAAGAGCAGGACGCATTTTATTTCCTTTTTTTCCTTTGTCC-CTGA
1 TCTTTTTTCCTTTGTCCTCGAAGAGCAGGACGCATTTCA-TT-C-TCTTTTCCTTTGTCCTC-GA
* *
839192 AGAGTAGGATGTAC
62 AAAGCAGGATGTAC
* * *
839206 TCTTTTTTCCTTTATCCTC-AAGGAGCAGGGCCCATTTCATTCTCTTTTCCTTTGTCCTCGAAAA
1 TCTTTTTTCCTTTGTCCTCGAA-GAGCAGGACGCATTTCATTCTCTTTTCCTTTGTCCTCGAAAA
*
839270 GCAGGATGTGC
65 GCAGGATGTAC
* *
839281 TC-CTTTTCCTTTGTCCTCGAAGAGCACGACGC
1 TCTTTTTTCCTTTGTCCTCGAAGAGCAGGACGC
839313 CCCTTTCCTT
Statistics
Matches: 91, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
74 22 0.24
75 31 0.34
76 2 0.02
77 4 0.04
78 32 0.35
ACGTcount: A:0.17, C:0.26, G:0.18, T:0.39
Consensus pattern (75 bp):
TCTTTTTTCCTTTGTCCTCGAAGAGCAGGACGCATTTCATTCTCTTTTCCTTTGTCCTCGAAAAG
CAGGATGTAC
Found at i:839323 original size:31 final size:33
Alignment explanation
Indices: 839251--839323 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 33
839241 TTCATTCTCT
* * *
839251 TTTCCTTTGTCCTCGAAAAGCAGGATGTGCTCCT
1 TTTCCTTTGTCCTCGAAAAGCACGA-GCGCTCCC
*
839285 TTTCCTTTGTCCTCGAAGAGCACGA-CGC-CCC
1 TTTCCTTTGTCCTCGAAAAGCACGAGCGCTCCC
839316 TTTCCTTT
1 TTTCCTTT
839324 TCTTTCCCCT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 10 0.29
32 2 0.06
34 23 0.66
ACGTcount: A:0.15, C:0.32, G:0.18, T:0.36
Consensus pattern (33 bp):
TTTCCTTTGTCCTCGAAAAGCACGAGCGCTCCC
Found at i:839330 original size:75 final size:75
Alignment explanation
Indices: 839132--839330 Score: 192
Period size: 75 Copynumber: 2.6 Consensus size: 75
839122 TTTCATTCTT
** *
839132 TTTTCCTTTGTCCTCGAAGAGCAGGACGCATTTTATTTCCTTTT-TTTCCTTTGTCCCTGAAGAG
1 TTTTCCTTTGTCCTCGAAGAGCA-GACGC---CCATTTCCTTTTCTTTCCTTTGTCCCTGAAAAG
* *
839196 TAGGATGTACTCTT
62 CAGGATGTACTCTC
* * * *
839210 TTTTCCTTTATCCTC-AAGGAGCAG-GGCCCATTTCATTCTCTTTTCCTTTGT-CCTCGAAAAGC
1 TTTTCCTTTGTCCTCGAA-GAGCAGACGCCCATTTCCTTTTC-TTTCCTTTGTCCCT-GAAAAGC
*
839272 AGGATGTGCTC-C
63 AGGATGTACTCTC
*
839284 TTTTCCTTTGTCCTCGAAGAGCACGACGCCCCTTTCCTTTTCTTTCC
1 TTTTCCTTTGTCCTCGAAGAGCA-GACGCCCATTTCCTTTTCTTTCC
839331 CCTTCTAAAG
Statistics
Matches: 99, Mismatches: 15, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
73 8 0.08
74 22 0.22
75 33 0.33
76 14 0.14
77 3 0.03
78 19 0.19
ACGTcount: A:0.16, C:0.28, G:0.17, T:0.40
Consensus pattern (75 bp):
TTTTCCTTTGTCCTCGAAGAGCAGACGCCCATTTCCTTTTCTTTCCTTTGTCCCTGAAAAGCAGG
ATGTACTCTC
Found at i:839927 original size:20 final size:20
Alignment explanation
Indices: 839898--839951 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
839888 TTTACCCAAA
*
839898 TGTATTGATACATTGTTCAT
1 TGTATCGATACATTGTTCAT
*
839918 TGTATCGATACATTGTTTAT
1 TGTATCGATACATTGTTCAT
*
839938 TGTATCAATACATT
1 TGTATCGATACATT
839952 CTGGGTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.48
Consensus pattern (20 bp):
TGTATCGATACATTGTTCAT
Found at i:839992 original size:70 final size:70
Alignment explanation
Indices: 839867--840002 Score: 159
Period size: 70 Copynumber: 1.9 Consensus size: 70
839857 TTTTCACAAT
* * *
839867 TTGTATCGATACATTCCTAGTTTTACCCAAATGTATTGATACATTGTTCATTGTATCGATACATT
1 TTGTATCAATACATTCCTAGTTTTACCCAAATGTATCGATACATTGTTCAATGTATCGATACATT
839932 GTTTA
66 GTTTA
* * * * * *
839937 TTGTATCAATACATT-CTGGGTTTTACCTAGATGTATCGATATATT-TGTCAATGTATTGGTACA
1 TTGTATCAATACATTCCT-AGTTTTACCCAAATGTATCGATACATTGT-TCAATGTATCGATACA
840000 TTG
64 TTG
840003 AGGCATTTTT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
69 3 0.05
70 52 0.95
ACGTcount: A:0.26, C:0.14, G:0.15, T:0.44
Consensus pattern (70 bp):
TTGTATCAATACATTCCTAGTTTTACCCAAATGTATCGATACATTGTTCAATGTATCGATACATT
GTTTA
Found at i:845648 original size:10 final size:9
Alignment explanation
Indices: 845633--845678 Score: 56
Period size: 9 Copynumber: 4.8 Consensus size: 9
845623 AGGTATTCCC
*
845633 TTTTTTTGG
1 TTTTTTTTG
845642 TTTTTTTTG
1 TTTTTTTTG
845651 TTTTGTTTTTG
1 -TTT-TTTTTG
845662 TTGTTTTTTG
1 TT-TTTTTTG
845672 TTTTTTT
1 TTTTTTT
845679 AAGCCTCTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
9 13 0.39
10 13 0.39
11 7 0.21
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:845659 original size:21 final size:21
Alignment explanation
Indices: 845635--845675 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
845625 GTATTCCCTT
845635 TTTTTGGTT-TTTTTTGTTTTG
1 TTTTT-GTTGTTTTTTGTTTTG
845656 TTTTTGTTGTTTTTTGTTTT
1 TTTTTGTTGTTTTTTGTTTT
845676 TTTAAGCCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (21 bp):
TTTTTGTTGTTTTTTGTTTTG
Found at i:846069 original size:111 final size:111
Alignment explanation
Indices: 845805--846110 Score: 360
Period size: 111 Copynumber: 2.7 Consensus size: 111
845795 ACTTTGGTTG
* * ** * **
845805 GCCCAAAAAATTTCAATACTGATAGGGTACATGCCCTATTTTCCTAGGCACGAATGGATTAGGTT
1 GCCC-AAAGATTTCAAAACTGATAGGACACATGCCCTATTTTCCTAGGCATGAATGGATTAGAAT
* * * * **
845870 ATACAAAATATGAAGTTCCAAAAATCAGACAAATTAGATGTTGTTTGG
65 ATACAAAATATGAA-TTTCAAAAATCAAACAAATTAAATATTGTTTAA
* * *
845918 GCCCAAATATTTCAAAACTCATAGGACACGTGCCCTATTTTCCTAGGCATGAATGGATTAGAATA
1 GCCCAAAGATTTCAAAACTGATAGGACACATGCCCTATTTTCCTAGGCATGAATGGATTAGAATA
* *
845983 TACAAAATATGATTTTCAAAAATCAAACAGATTAAATATTGTTTAA
66 TACAAAATATGAATTTCAAAAATCAAACAAATTAAATATTGTTTAA
*** * ** *
846029 GTTTAAAGATTTCAAAACTGATAGGACACATGCCCCATTTTCCTAGGCATGAATGGATCGGAATG
1 GCCCAAAGATTTCAAAACTGATAGGACACATGCCCTATTTTCCTAGGCATGAATGGATTAGAATA
*
846094 TATAAAATATGAATTTC
66 TACAAAATATGAATTTC
846111 TTTGAAAATC
Statistics
Matches: 164, Mismatches: 29, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
111 96 0.59
112 64 0.39
113 4 0.02
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (111 bp):
GCCCAAAGATTTCAAAACTGATAGGACACATGCCCTATTTTCCTAGGCATGAATGGATTAGAATA
TACAAAATATGAATTTCAAAAATCAAACAAATTAAATATTGTTTAA
Found at i:846734 original size:10 final size:10
Alignment explanation
Indices: 846699--846743 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
846689 ACTATCTACA
846699 TTTTCTTTTT
1 TTTTCTTTTT
* * *
846709 ATTTCATGTT
1 TTTTCTTTTT
846719 TTTTCTTTTT
1 TTTTCTTTTT
846729 TTTTCTTTTT
1 TTTTCTTTTT
846739 CTTTT
1 -TTTT
846744 TTGTGTTTGT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
10 24 0.86
11 4 0.14
ACGTcount: A:0.04, C:0.11, G:0.02, T:0.82
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:849777 original size:50 final size:49
Alignment explanation
Indices: 849660--849924 Score: 153
Period size: 52 Copynumber: 5.3 Consensus size: 49
849650 CACATTGGCA
* * * * * ** *
849660 TAAGCCCAATATCGCTGGCTTTGAATCGGCATATTGGCACCTT-GTCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTAGCATTTTCATCTT
*
849708 TAAGACCAATGTCGCTGGCCCTTGAATCAGCACATTAGCATTTTCATCTT
1 TAAGACCAATATCGCTGG-CCTTGAATCAGCACATTAGCATTTTCATCTT
* * * * * * **
849758 TAAGTCCGATATCGTTGGCCTTTAATCAGCATATTGGCATCTTTAACATCCC
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTAGCAT-TTT--CATCTT
* * * ** * *
849810 TAAGCCCAATGTCGCTAGCCTTGTCTCAGCACATTGGCA--TTCTTCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTAGCATTTTCATCTT
* * *
849857 TAA-ATCTAATGTCGCTGGCCATGAATCAGCACATT-GTCATTCTTCGCATCTT
1 TAAGA-CCAATATCGCTGGCCTTGAATCAGCACATTAG-CATT-TT--CATCTT
* *
849909 CAAGCCCAATATCGCT
1 TAAGACCAATATCGCT
849925 AGCCGCATAT
Statistics
Matches: 163, Mismatches: 41, Indels: 22
0.72 0.18 0.10
Matches are distributed among these distances:
46 1 0.01
47 33 0.20
48 16 0.10
49 40 0.25
50 23 0.14
52 50 0.31
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.33
Consensus pattern (49 bp):
TAAGACCAATATCGCTGGCCTTGAATCAGCACATTAGCATTTTCATCTT
Found at i:849887 original size:99 final size:101
Alignment explanation
Indices: 849708--849892 Score: 221
Period size: 99 Copynumber: 1.8 Consensus size: 101
849698 ACCTTGTCTT
* * * *
849708 TAAGACCAATGTCGCTGGCCCTTGAATCAGCACATTAGCATTTTCATCTTTAAGTCCGATATCGT
1 TAAGACCAATGTCGCTAGCCCTTGAATCAGCACATTAGCA-TTTCATCTTTAAATCCAATATCGC
* * *
849773 TGGCCTTTAATCAGCATATTGGCATCTTTAACATCCC
65 TGGCCATGAATCAGCACATTGGCATCTTTAACATCCC
* ** * * * *
849810 TAAGCCCAATGTCGCTAG-CCTTGTCTCAGCACATTGGCA-TTCTTCTTTAAATCTAATGTCGCT
1 TAAGACCAATGTCGCTAGCCCTTGAATCAGCACATTAGCATTTCATCTTTAAATCCAATATCGCT
849873 GGCCATGAATCAGCACATTG
66 GGCCATGAATCAGCACATTG
849893 TCATTCTTCG
Statistics
Matches: 69, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
99 35 0.51
101 18 0.26
102 16 0.23
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (101 bp):
TAAGACCAATGTCGCTAGCCCTTGAATCAGCACATTAGCATTTCATCTTTAAATCCAATATCGCT
GGCCATGAATCAGCACATTGGCATCTTTAACATCCC
Found at i:850665 original size:19 final size:19
Alignment explanation
Indices: 850641--850703 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
850631 AAACAGTAAA
*
850641 TGTATCGATACACAAGTGT
1 TGTATCGATACATAAGTGT
850660 TGTATCGAT--ATAA----
1 TGTATCGATACATAAGTGT
850673 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
850692 TGTATCGATACA
1 TGTATCGATACA
850704 ATGTATTGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 9 0.24
15 4 0.11
17 3 0.08
19 21 0.57
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:850680 original size:32 final size:32
Alignment explanation
Indices: 850639--850709 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
850629 AAAAACAGTA
*
850639 AATGTATCGATACACAAGTGTTGTATCGATAT
1 AATGTATCGATACACAAGTGTTGTATCGATAC
*
850671 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACACAAGTGTTGTATCGATAC
850703 AATGTAT
1 AATGTAT
850710 TGCTACAAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.35
Consensus pattern (32 bp):
AATGTATCGATACACAAGTGTTGTATCGATAC
Found at i:850758 original size:20 final size:20
Alignment explanation
Indices: 850733--850770 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
850723 CTACCAAGGA
850733 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
850753 AATGTATCGATACATTAT
1 AATGTATCGATACATTAT
850771 ATCCATACGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTATTC
Found at i:854390 original size:29 final size:28
Alignment explanation
Indices: 854340--854430 Score: 94
Period size: 29 Copynumber: 3.2 Consensus size: 28
854330 GTCCTCCGCC
* * *
854340 AAAAAAA-AAAGAAAGAAGAAAAAAAAGA
1 AAAAAAACAAAAAAACAA-AAAAAAAAAA
* *
854368 AAAAAAACAAACAAACAAAAAAATAACAA
1 AAAAAAACAAAAAAACAAAAAAA-AAAAA
*
854397 AAAAAAACAAAAAAACAAAAAAAAACAA
1 AAAAAAACAAAAAAACAAAAAAAAAAAA
*
854425 CAAAAA
1 AAAAAA
854431 GGGTCCGGAT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
28 22 0.40
29 33 0.60
ACGTcount: A:0.86, C:0.09, G:0.04, T:0.01
Consensus pattern (28 bp):
AAAAAAACAAAAAAACAAAAAAAAAAAA
Found at i:854406 original size:21 final size:20
Alignment explanation
Indices: 854343--854430 Score: 81
Period size: 21 Copynumber: 4.2 Consensus size: 20
854333 CTCCGCCAAA
*
854343 AAAAAAAGAAAGAAGAAAAAA-
1 AAAAAAACAAA-AA-AAAAAAC
* *
854364 AAGAAAAA-AAACAAACAAAC
1 AA-AAAAACAAAAAAAAAAAC
*
854384 AAAAAAATAACAAAAAAAAAC
1 AAAAAAACAA-AAAAAAAAAC
854405 AAAAAAACAAAAAAAAACAAC
1 AAAAAAACAAAAAAAAA-AAC
854426 AAAAA
1 AAAAA
854431 GGGTCCGGAT
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
19 10 0.18
20 12 0.21
21 30 0.53
22 5 0.09
ACGTcount: A:0.85, C:0.09, G:0.05, T:0.01
Consensus pattern (20 bp):
AAAAAAACAAAAAAAAAAAC
Found at i:854429 original size:18 final size:17
Alignment explanation
Indices: 854339--854421 Score: 94
Period size: 18 Copynumber: 4.6 Consensus size: 17
854329 TGTCCTCCGC
*
854339 CAAAAAAAAAAGAAAGAA
1 CAAAAAAAAAA-AAAAAA
*
854357 GAAAAAAAAGAAAAAAAA
1 CAAAAAAAA-AAAAAAAA
*
854375 CAAACAAACAAAAAAATAA
1 CAAA-AAA-AAAAAAAAAA
854394 CAAAAAAAAACAAAAAAA
1 CAAAAAAAAA-AAAAAAA
854412 CAAAAAAAAA
1 CAAAAAAAAA
854422 CAACAAAAAG
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
17 3 0.05
18 35 0.62
19 16 0.29
20 2 0.04
ACGTcount: A:0.86, C:0.08, G:0.05, T:0.01
Consensus pattern (17 bp):
CAAAAAAAAAAAAAAAA
Found at i:854430 original size:1 final size:1
Alignment explanation
Indices: 854340--854421 Score: 65
Period size: 1 Copynumber: 82.0 Consensus size: 1
854330 GTCCTCCGCC
* * * * * * * * * *
854340 AAAAAAAAAAGAAAGAAGAAAAAAAAGAAAAAAAACAAACAAACAAAAAAATAACAAAAAAAAAC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
854405 AAAAAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAA
854422 CAACAAAAAG
Statistics
Matches: 59, Mismatches: 22, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.87, C:0.07, G:0.05, T:0.01
Consensus pattern (1 bp):
A
Found at i:855938 original size:57 final size:57
Alignment explanation
Indices: 855854--856148 Score: 364
Period size: 57 Copynumber: 5.2 Consensus size: 57
855844 TCACCTTTTC
*
855854 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAATCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* * *
855911 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAACCCACAAGTCTGTGGTAACCTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
*
855968 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAATCTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* * * * * * *
856025 AAAGCCCACAAGTCAATGGCACCCCTTT-C-AAGCCCACAAGTTAGTGGTATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCCAAAGCCCACAAGTCAGTGGCAAC-CTTCA
* * * * **
856082 AAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCACACAAGTTGGT-GCAACCCTTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAA-CC-TTCA
856139 AAAGCCCACA
1 AAAGCCCACA
856149 CAAGTTGGTG
Statistics
Matches: 207, Mismatches: 25, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
55 2 0.01
56 21 0.10
57 180 0.87
58 4 0.02
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (57 bp):
AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
Found at i:856058 original size:85 final size:85
Alignment explanation
Indices: 855854--856148 Score: 332
Period size: 85 Copynumber: 3.4 Consensus size: 85
855844 TCACCTTTTC
* * * * *
855854 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAATCAGTGGCAAC-CTTCAAAAGCCC
1 AAAGCCCACAAGTCAGTGGCAACCTTT-CAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCC
855918 ACAAGTCAGTGGC-ATCTTTTCCA
65 ACAAGTCAGTGGCAATC--TT-CA
* * *
855941 AAA-CCCACAAGTCTGTGGTAACC-TTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCC
1 AAAGCCCACAAGTCAGTGGCAACCTTTC-AAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCC
856004 ACAAGTCAGTGGCAATCTTCA
65 ACAAGTCAGTGGCAATCTTCA
* * * *
856025 AAAGCCCACAAGTCAATGGCACCCCTTTC-AAGCCCACAAGTTAGTGGTATCTTTTCAAAAGCCC
1 AAAGCCCACAAGTCAGTGGCA-ACCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCC
*
856089 ACAAGTCAGTGGCAACCTTCA
65 ACAAGTCAGTGGCAATCTTCA
* **
856110 AAAGCACACAAGTTGGT-GCAACCCTTTCAAAAGCCCACA
1 AAAGCCCACAAGTCAGTGGCAA-CCTTTC-AAAGCCCACA
856149 CAAGTTGGTG
Statistics
Matches: 178, Mismatches: 21, Indels: 19
0.82 0.10 0.09
Matches are distributed among these distances:
84 15 0.08
85 104 0.58
86 50 0.28
87 9 0.05
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (85 bp):
AAAGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCA
CAAGTCAGTGGCAATCTTCA
Found at i:856152 original size:31 final size:29
Alignment explanation
Indices: 856077--856158 Score: 98
Period size: 28 Copynumber: 2.8 Consensus size: 29
856067 AGTGGTATCT
**
856077 TTTCAAAAGCC-CACAAGTCAGTGGCAACC
1 TTTCAAAAGCCACACAAGTTGGT-GCAACC
856106 -TTCAAAAG-CACACAAGTTGGTGCAACCC
1 TTTCAAAAGCCACACAAGTTGGTGCAA-CC
856134 TTTCAAAAGCCCACACAAGTTGGTG
1 TTTCAAAAG-CCACACAAGTTGGTG
856159 GCATCTTCTT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
27 5 0.11
28 19 0.41
29 8 0.17
31 14 0.30
ACGTcount: A:0.34, C:0.28, G:0.18, T:0.20
Consensus pattern (29 bp):
TTTCAAAAGCCACACAAGTTGGTGCAACC
Found at i:856230 original size:42 final size:43
Alignment explanation
Indices: 856170--856252 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 43
856160 CATCTTCTTC
*
856170 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCAT
1 TAAGTCCAATATCGCTGGCCTTGAATAAGCATATTGGCACCAT
*
856213 TAAGT-CAATGTCGCTGGCCTTGAATAAGCATATTGGCACC
1 TAAGTCCAATATCGCTGGCCTTGAATAAGCATATTGGCACC
856253 GGCATCTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 33 0.87
43 5 0.13
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (43 bp):
TAAGTCCAATATCGCTGGCCTTGAATAAGCATATTGGCACCAT
Found at i:856379 original size:87 final size:87
Alignment explanation
Indices: 856218--856387 Score: 225
Period size: 87 Copynumber: 1.9 Consensus size: 87
856208 ACCATTAAGT
* * *
856218 CAATGTCGCTGGCCTTGAATAAGCATATTGGCACCGGCATCTTTAAGACCAATGTTGCTACCCTT
1 CAATATCGCTGGCCTTGAATAAGCATATTGGCACCGG-ATCGTTAAGACCAATGTCGCTACCCTT
856283 GAATTAGCACATTGGCATAAGCC
65 GAATTAGCACATTGGCATAAGCC
* ** * * **
856306 CAATATCGCTGGCTTTGAATTGGCATATTGGCACCTTG-TCGTTAAGACCAATGTCGTTGGCCTT
1 CAATATCGCTGGCCTTGAATAAGCATATTGGCACC-GGATCGTTAAGACCAATGTCGCTACCCTT
856370 GAATTAGCACATTGGCAT
65 GAATTAGCACATTGGCAT
856388 TTTTATCTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
87 39 0.55
88 31 0.44
89 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (87 bp):
CAATATCGCTGGCCTTGAATAAGCATATTGGCACCGGATCGTTAAGACCAATGTCGCTACCCTTG
AATTAGCACATTGGCATAAGCC
Found at i:856384 original size:48 final size:49
Alignment explanation
Indices: 856300--856437 Score: 152
Period size: 49 Copynumber: 2.8 Consensus size: 49
856290 CACATTGGCA
* * * * *
856300 TAAGCCCAATATCGCTGGCTTTGAATTGGCATATTGGCA-CCTTGTCGT
1 TAAGACCAATATCGTTGGCCTTGAATTAGCATATTGGCATCCTTATCGT
* * ** *
856348 TAAGACCAATGTCGTTGGCCTTGAATTAGCACATTGGCATTTTTATCTT
1 TAAGACCAATATCGTTGGCCTTGAATTAGCATATTGGCATCCTTATCGT
* * *
856397 TAAGTCCGATATCGTTGGCCTTGAATCAGCATATTGGCATC
1 TAAGACCAATATCGTTGGCCTTGAATTAGCATATTGGCATC
856438 TTTAATATCC
Statistics
Matches: 73, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
48 33 0.45
49 40 0.55
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (49 bp):
TAAGACCAATATCGTTGGCCTTGAATTAGCATATTGGCATCCTTATCGT
Found at i:856471 original size:52 final size:49
Alignment explanation
Indices: 856353--856489 Score: 148
Period size: 52 Copynumber: 2.7 Consensus size: 49
856343 GTCGTTAAGA
* ** **
856353 CCAATGTCGTTGGCCTTGAATTAGCACATTGGCATTTTTATCTTTAAGT
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCATTTTTATCCCTAAAC
* * *
856402 CCGATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAATATCCCTAAAC
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCAT-TTT--TATCCCTAAAC
* **
856454 CCAATGTCGCTGGCCTTGTCTCAGCACATTGGCATT
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCATT
856490 CTTCTTTAAA
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
49 31 0.44
50 3 0.04
51 1 0.01
52 36 0.51
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (49 bp):
CCAATGTCGTTGGCCTTGAATCAGCACATTGGCATTTTTATCCCTAAAC
Found at i:857382 original size:13 final size:13
Alignment explanation
Indices: 857364--857388 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
857354 TTATTCAATG
857364 TATCGATACATTC
1 TATCGATACATTC
857377 TATCGATACATT
1 TATCGATACATT
857389 GATCTTTGTA
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:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (13 bp):
TATCGATACATTC
Found at i:858354 original size:20 final size:20
Alignment explanation
Indices: 858309--858354 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
858299 GTTAGCAGCC
*
858309 CATGATTCATGCATTTTAAG
1 CATGTTTCATGCATTTTAAG
858329 CTATGTTTCATGCA-TTTACAG
1 C-ATGTTTCATGCATTTTA-AG
858350 CATGT
1 CATGT
858355 CCAGCACCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.41
Consensus pattern (20 bp):
CATGTTTCATGCATTTTAAG
Found at i:870845 original size:12 final size:12
Alignment explanation
Indices: 870828--870868 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
870818 TCCTCCGCAA
870828 AAAAAAACAAAC
1 AAAAAAACAAAC
870840 AAAAAAA-ATAAC
1 AAAAAAACA-AAC
870852 AAAATAAACAAA-
1 AAAA-AAACAAAC
870864 AAAAA
1 AAAAA
870869 CCAAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
11 2 0.08
12 18 0.69
13 5 0.19
14 1 0.04
ACGTcount: A:0.85, C:0.10, G:0.00, T:0.05
Consensus pattern (12 bp):
AAAAAAACAAAC
Found at i:870855 original size:9 final size:9
Alignment explanation
Indices: 870827--870886 Score: 70
Period size: 9 Copynumber: 6.8 Consensus size: 9
870817 GTCCTCCGCA
870827 AAAAAAAAC
1 AAAAAAAAC
*
870836 -AAACAAA-
1 AAAAAAAAC
*
870843 AAAAATAAC
1 AAAAAAAAC
*
870852 AAAATAAAC
1 AAAAAAAAC
870861 AAAAAAAACC
1 AAAAAAAA-C
870871 AAAAAAAAC
1 AAAAAAAAC
870880 AAAAAAA
1 AAAAAAA
870887 GGGTCCGGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
8 11 0.26
9 22 0.52
10 9 0.21
ACGTcount: A:0.85, C:0.12, G:0.00, T:0.03
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:870855 original size:21 final size:20
Alignment explanation
Indices: 870826--870886 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
870816 CGTCCTCCGC
*
870826 AAAAA-AAAACAAACAAAAA
1 AAAAACAAAAAAAACAAAAA
*
870845 AAATAACAAAATAAAC-AAAA
1 AAA-AACAAAAAAAACAAAAA
*
870865 AAAACCAAAAAAAACAAAAA
1 AAAAACAAAAAAAACAAAAA
870885 AA
1 AA
870887 GGGTCCGGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
19 13 0.36
20 15 0.42
21 8 0.22
ACGTcount: A:0.85, C:0.11, G:0.00, T:0.03
Consensus pattern (20 bp):
AAAAACAAAAAAAACAAAAA
Found at i:870866 original size:19 final size:19
Alignment explanation
Indices: 870830--870886 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 19
870820 CTCCGCAAAA
*
870830 AAAAACAAACAAAAAAAATAAC
1 AAAAA-AAAC-AAAAAAA-ACC
*
870852 AAAATAAACAAAAAAAACC
1 AAAAAAAACAAAAAAAACC
870871 AAAAAAAACAAAAAAA
1 AAAAAAAACAAAAAAA
870887 GGGTCCGGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 17 0.53
20 7 0.22
21 4 0.12
22 4 0.12
ACGTcount: A:0.84, C:0.12, G:0.00, T:0.04
Consensus pattern (19 bp):
AAAAAAAACAAAAAAAACC
Found at i:870884 original size:8 final size:8
Alignment explanation
Indices: 870828--870886 Score: 57
Period size: 8 Copynumber: 6.9 Consensus size: 8
870818 TCCTCCGCAA
870828 AAAAAAAC
1 AAAAAAAC
870836 AAACAAAA-
1 AAA-AAAAC
*
870844 AAAATAAC
1 AAAAAAAC
870852 AAAATAAAC
1 AAAA-AAAC
870861 AAAAAAAACC
1 -AAAAAAA-C
870871 AAAAAAAAC
1 -AAAAAAAC
870880 AAAAAAA
1 AAAAAAA
870887 GGGTCCGGAT
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
7 3 0.07
8 17 0.39
9 11 0.25
10 13 0.30
ACGTcount: A:0.85, C:0.12, G:0.00, T:0.03
Consensus pattern (8 bp):
AAAAAAAC
Found at i:872346 original size:29 final size:29
Alignment explanation
Indices: 872305--872558 Score: 297
Period size: 28 Copynumber: 8.9 Consensus size: 29
872295 ATTCCTCACA
*
872305 TTTT-CAAAGCCCACAAGTCAATGGCATC
1 TTTTCCAAAGCCCACAAGTCAGTGGCATC
* *
872333 TTTTCCAAAGCCCACAAGTCAATGGCAAC
1 TTTTCCAAAGCCCACAAGTCAGTGGCATC
* *
872362 -CTTCAAAAGCCCACAAGTCAGTGGCATC
1 TTTTCCAAAGCCCACAAGTCAGTGGCATC
*
872390 TTTTCCAAAGCCCACAAGTCAGTGGCAAC
1 TTTTCCAAAGCCCACAAGTCAGTGGCATC
* *
872419 CTTT-AAAAGCCCACAAGTCAGTGGCATC
1 TTTTCCAAAGCCCACAAGTCAGTGGCATC
872447 TTTTCCAAAGCCCACAAGTCAGTGGCAATC
1 TTTTCCAAAGCCCACAAGTCAGTGGC-ATC
* * * *
872477 --TTCAAAAGCCTACAAGTCAATGGCACCC
1 TTTTCCAAAGCCCACAAGTCAGTGGCA-TC
* * *
872505 CTTT-C-AAGGCCACAAGTCAGTGGTATC
1 TTTTCCAAAGCCCACAAGTCAGTGGCATC
*
872532 TTTTCAAAAGCCCACAAGTCAGTGGCA
1 TTTTCCAAAGCCCACAAGTCAGTGGCA
872559 ACCTTCAAAA
Statistics
Matches: 190, Mismatches: 27, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
27 5 0.03
28 91 0.48
29 89 0.47
30 5 0.03
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.22
Consensus pattern (29 bp):
TTTTCCAAAGCCCACAAGTCAGTGGCATC
Found at i:872394 original size:57 final size:57
Alignment explanation
Indices: 872310--872621 Score: 371
Period size: 57 Copynumber: 5.4 Consensus size: 57
872300 TCACATTTTC
* *
872310 AAAGCCCACAAGTCAATGGCATCTTTTCCAAAGCCCACAAGTCAATGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
*
872367 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTTA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
*
872424 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAATCTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* * * * * * * *
872481 AAAGCCTACAAGTCAATGGCACCCCTTT-C-AAGGCCACAAGTCAGTGGTATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCCAAAGCCCACAAGTCAGTGGCAAC-CTTCA
* * * * **
872538 AAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCACACAAGTTGGT-GCAACCCTTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAA-CC-TTCA
*
872595 AAAGCCAACACAAGTTAGTGGCATCTT
1 AAAGCC--CACAAGTCAGTGGCATCTT
872622 CTTCTAAGTC
Statistics
Matches: 217, Mismatches: 29, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
55 2 0.01
56 21 0.10
57 175 0.81
58 4 0.02
59 15 0.07
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (57 bp):
AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
Done.