Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008337.1 Hibiscus syriacus cultivar Beakdansim tig00111057_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 840327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:551528 original size:124 final size:124
Alignment explanation
Indices: 551256--551556 Score: 460
Period size: 124 Copynumber: 2.4 Consensus size: 124
551246 TCCATAATTT
* **
551256 CTTGGTCTGAATCTTTTCATCTCAACATGACGTGGGTTTGGTCTCGCCCCAACATTATCTTACAC
1 CTTGGTCTGAATCTTTTCATCTCAACATGATGTGGGTTCAGTCT-GCCCCAACATTATCTTACAC
* * * * *
551321 TGGTATGGGCCTTCAAAATGCCCCATCACCTCAAATTGTAAGGCTCATTCTTCATGCCTC
65 TGGTACGGGCCATCAAAATGCCCCAACACCTCAAATTGTAAGGCTCATTCTTAATACCTC
*
551381 CTTGGTCTGAATCTTTTCATCTCAACATGATGTGGGTTCAGTCATGCCCCAACATTATCTTATAC
1 CTTGGTCTGAATCTTTTCATCTCAACATGATGTGGGTTCAGTC-TGCCCCAACATTATCTTACAC
551446 TGGTACGGG-CATCAAAATGCCCCAACACCTCAAATTGTAAGGCTCATTCTTAATACCTC
65 TGGTACGGGCCATCAAAATGCCCCAACACCTCAAATTGTAAGGCTCATTCTTAATACCTC
* * *
551505 CTTGGTCTGAATCTTGTCTTCTCAACATGATGTGGGTTCATTCGTGCCCCAA
1 CTTGGTCTGAATCTTTTCATCTCAACATGATGTGGGTTCAGTC-TGCCCCAA
551557 AATGGGTACT
Statistics
Matches: 162, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
124 94 0.58
125 67 0.41
126 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (124 bp):
CTTGGTCTGAATCTTTTCATCTCAACATGATGTGGGTTCAGTCTGCCCCAACATTATCTTACACT
GGTACGGGCCATCAAAATGCCCCAACACCTCAAATTGTAAGGCTCATTCTTAATACCTC
Found at i:558887 original size:3 final size:3
Alignment explanation
Indices: 558881--558957 Score: 138
Period size: 3 Copynumber: 25.7 Consensus size: 3
558871 ATATTATTAT
558881 TAA TAA T-A TAA TAA TAA TAA TAA TAA TATA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
558926 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
558958 TCCCGGACAA
Statistics
Matches: 72, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.03
3 67 0.93
4 3 0.04
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:564843 original size:42 final size:42
Alignment explanation
Indices: 564783--564873 Score: 121
Period size: 42 Copynumber: 2.2 Consensus size: 42
564773 CCGAAATCCT
* *
564783 GTGTTTGTTTCATATAATTTGTTTTCCAGAAAATGTTTTCTC-
1 GTGTTTGTTTCACATAATTCGTTTTCCAGAAAATGTTTTC-CA
* * *
564825 GTGTTTGTTTCACGTAATTCGTTTTTCGGAAAATGTTTTCCA
1 GTGTTTGTTTCACATAATTCGTTTTCCAGAAAATGTTTTCCA
564867 GTGTTTG
1 GTGTTTG
564874 GTTAGAAGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
41 1 0.02
42 42 0.98
ACGTcount: A:0.19, C:0.12, G:0.19, T:0.51
Consensus pattern (42 bp):
GTGTTTGTTTCACATAATTCGTTTTCCAGAAAATGTTTTCCA
Found at i:565132 original size:21 final size:21
Alignment explanation
Indices: 565099--565152 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
565089 TATTTAAAAT
*
565099 ATATTATTAATATTTCTAATA
1 ATATAATTAATATTTCTAATA
* *
565120 ATATAATTTATATTTTTAATA
1 ATATAATTAATATTTCTAATA
* *
565141 TTATAATAAATA
1 ATATAATTAATA
565153 ATCAATTATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
ATATAATTAATATTTCTAATA
Found at i:565139 original size:30 final size:28
Alignment explanation
Indices: 565098--565154 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 28
565088 ATATTTAAAA
*
565098 TATATTATTAATATTTCTAATAATATAATT
1 TATATTATTAATA-TTATAATAA-ATAATT
*
565128 TATATTTTTAATATTATAATAAATAAT
1 TATATTATTAATATTATAATAAATAAT
565155 CAATTATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 5 0.20
29 8 0.32
30 12 0.48
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (28 bp):
TATATTATTAATATTATAATAAATAATT
Found at i:565211 original size:28 final size:30
Alignment explanation
Indices: 565115--565285 Score: 119
Period size: 28 Copynumber: 5.8 Consensus size: 30
565105 TTAATATTTC
*
565115 TAATAATATAATTTATATTTTTAATATTATAATA
1 TAATAAT-T-ATTTATATATTTAATA--ATAATA
* * *
565149 -AATAATCA-AT-TATA-TT-ATAAAAATA
1 TAATAATTATTTATATATTTAATAATAATA
* *
565174 TAAGATATTATTT-TTTATTTAATAAT-ATA
1 TAATA-ATTATTTATATATTTAATAATAATA
*
565203 TAATAATTATTTATATATTTAATAATGA-A
1 TAATAATTATTTATATATTTAATAATAATA
*
565232 TAAT-ATTATTTATATATTTAATATTAATA
1 TAATAATTATTTATATATTTAATAATAATA
* * *
565261 TAAAAATCTAATAATAT-TTTAATAA
1 TAATAAT-TATTTATATATTTAATAA
565286 AGATATTTAA
Statistics
Matches: 110, Mismatches: 17, Indels: 24
0.73 0.11 0.16
Matches are distributed among these distances:
25 5 0.05
26 3 0.03
27 6 0.05
28 34 0.31
29 33 0.30
30 15 0.14
31 8 0.07
33 6 0.05
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (30 bp):
TAATAATTATTTATATATTTAATAATAATA
Found at i:565225 original size:19 final size:21
Alignment explanation
Indices: 565188--565228 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
565178 ATATTATTTT
565188 TTATTTAATAATATATAATAA
1 TTATTTAATAATATATAATAA
*
565209 TTATTT-AT-ATATTTAATAA
1 TTATTTAATAATATATAATAA
565228 T
1 T
565229 GAATAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
20 2 0.11
21 6 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TTATTTAATAATATATAATAA
Found at i:565306 original size:23 final size:23
Alignment explanation
Indices: 565280--565324 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
565270 AATAATATTT
565280 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
565303 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
565325 ATATCACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:565642 original size:14 final size:14
Alignment explanation
Indices: 565632--565671 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
565622 TCATTTTACA
565632 GAAAACATTTTCCG
1 GAAAACATTTTCCG
*
565646 GAAAACGTTTTCCG
1 GAAAACATTTTCCG
*
565660 GAAAACGTTTTC
1 GAAAACATTTTC
565672 TAGAAATGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (14 bp):
GAAAACATTTTCCG
Found at i:565677 original size:14 final size:14
Alignment explanation
Indices: 565625--565677 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
565615 ATATAATTCA
* *
565625 TTTTACAGAAAACA
1 TTTTCCAGAAAACG
*
565639 TTTTCCGGAAAACG
1 TTTTCCAGAAAACG
*
565653 TTTTCCGGAAAACG
1 TTTTCCAGAAAACG
*
565667 TTTTCTAGAAA
1 TTTTCCAGAAA
565678 TGTAATTCAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (14 bp):
TTTTCCAGAAAACG
Found at i:565700 original size:14 final size:14
Alignment explanation
Indices: 565681--565739 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
565671 CTAGAAATGT
*
565681 AATTCATTTTCCAG
1 AATTCAATTTCCAG
* ** *
565695 AATTCAAATTGTATT
1 AATTCAATTTCCA-G
*
565710 AATTCATTTTCCAG
1 AATTCAATTTCCAG
565724 AATTCAATTTCCAG
1 AATTCAATTTCCAG
565738 AA
1 AA
565740 AACCAATTAC
Statistics
Matches: 33, Mismatches: 11, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
14 24 0.73
15 9 0.27
ACGTcount: A:0.36, C:0.17, G:0.07, T:0.41
Consensus pattern (14 bp):
AATTCAATTTCCAG
Found at i:567478 original size:36 final size:36
Alignment explanation
Indices: 567437--567576 Score: 217
Period size: 36 Copynumber: 3.9 Consensus size: 36
567427 ATTTATCCAT
*
567437 TATCAGCTTTGATACATTCATGTATCAATGTTATCA
1 TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
*
567473 TATCAGCTTTGATACATTCGTGTATCATTGTTATCA
1 TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
* * *
567509 TATCAACTTTGGTACATCCGTGTATCAATGTTATCA
1 TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
* *
567545 TATCAGTTTTGGTACATTCGTGTATCAATGTT
1 TATCAGCTTTGATACATTCGTGTATCAATGTT
567577 CAGCACCGTT
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 95 1.00
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.43
Consensus pattern (36 bp):
TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
Found at i:568201 original size:14 final size:14
Alignment explanation
Indices: 568182--568214 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
568172 TAGAACTATT
568182 TTAGTTTA-TTTTA
1 TTAGTTTAGTTTTA
568195 CTTAGTTTAGTTTTA
1 -TTAGTTTAGTTTTA
568210 TTAGT
1 TTAGT
568215 ATATATGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.21, C:0.03, G:0.12, T:0.64
Consensus pattern (14 bp):
TTAGTTTAGTTTTA
Found at i:576866 original size:26 final size:26
Alignment explanation
Indices: 576819--576868 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
576809 AGCATTTTTA
*
576819 TTTTACTTGTTCATTTTTTTGTATAG
1 TTTTACTTGTTCATTTTCTTGTATAG
576845 TTTTACTTGTT-ATTTTCCTTGTAT
1 TTTTACTTGTTCATTTT-CTTGTAT
576869 TTTTCAGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.14, C:0.10, G:0.10, T:0.66
Consensus pattern (26 bp):
TTTTACTTGTTCATTTTCTTGTATAG
Found at i:576871 original size:11 final size:12
Alignment explanation
Indices: 576816--576871 Score: 53
Period size: 12 Copynumber: 4.6 Consensus size: 12
576806 CAAAGCATTT
576816 TTATTTTACTTG
1 TTATTTTACTTG
*
576828 TTCATTTT-TTTG
1 TT-ATTTTACTTG
576840 TATAGTTTTACTTG
1 T-TA-TTTTACTTG
*
576854 TTATTTTCCTTG
1 TTATTTTACTTG
576866 -TATTTT
1 TTATTTT
576872 TCAGGTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
11 6 0.16
12 15 0.41
13 12 0.32
14 4 0.11
ACGTcount: A:0.14, C:0.09, G:0.09, T:0.68
Consensus pattern (12 bp):
TTATTTTACTTG
Found at i:582266 original size:20 final size:22
Alignment explanation
Indices: 582238--582279 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
582228 ATACTACCAC
582238 CATTCCA-TTT-CCACATCATT
1 CATTCCATTTTACCACATCATT
*
582258 CATTTCATTTTACCACATCATT
1 CATTCCATTTTACCACATCATT
582280 ATCATTTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 3 0.16
22 10 0.53
ACGTcount: A:0.26, C:0.31, G:0.00, T:0.43
Consensus pattern (22 bp):
CATTCCATTTTACCACATCATT
Found at i:582851 original size:21 final size:21
Alignment explanation
Indices: 582827--582878 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
582817 AACTATTTTT
582827 TAGTTAA-AAGTTATTTATGAA
1 TAGTTAACAA-TTATTTATGAA
582848 TAGTTAACAATTATTTATGAA
1 TAGTTAACAATTATTTATGAA
*
582869 AAGTTAACAA
1 TAGTTAACAA
582879 AAGTTGGTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 27 0.93
22 2 0.07
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.38
Consensus pattern (21 bp):
TAGTTAACAATTATTTATGAA
Found at i:586004 original size:128 final size:132
Alignment explanation
Indices: 585769--586010 Score: 339
Period size: 128 Copynumber: 1.9 Consensus size: 132
585759 TAGAAATTTC
* *
585769 TCAGTGATATATCAAACCATTGAATGATGTTTTTTTTACTAATGCTTTAATGAAAAACATCATTT
1 TCAGTGATATATCAAACAATTGAATGATG-TTTTTTGACTAATGCTTTAATGAAAAACATCATTT
* * *
585834 TCTCAGTGACCATTTAGTGCATAATGACAAAAACCTTGCAGTGCTCAATAACATCATTTTTAAAC
65 TCTCAGTGACCATTTAATGAACAATGACAAAAACCTTGCAGTGCTCAATAACATCATTTTTAAAC
585899 TTT
130 TTT
* * **
585902 TCAGTGATATATCAAACAATTGAATGATG-TTTTTGAC-CAT-TTTTAATGAAAAATGTCA-TTT
1 TCAGTGATATATCAAACAATTGAATGATGTTTTTTGACTAATGCTTTAATGAAAAACATCATTTT
* * *
585963 CTCAGTGACCATTTAATGAACAGTGACAAAAACTTTTCAGTGCTCAAT
66 CTCAGTGACCATTTAATGAACAATGACAAAAACCTTGCAGTGCTCAAT
586011 CACTTCAATT
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
128 45 0.46
129 15 0.15
130 2 0.02
131 7 0.07
133 28 0.29
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (132 bp):
TCAGTGATATATCAAACAATTGAATGATGTTTTTTGACTAATGCTTTAATGAAAAACATCATTTT
CTCAGTGACCATTTAATGAACAATGACAAAAACCTTGCAGTGCTCAATAACATCATTTTTAAACT
TT
Found at i:586117 original size:112 final size:112
Alignment explanation
Indices: 585920--586127 Score: 326
Period size: 112 Copynumber: 1.9 Consensus size: 112
585910 ATATCAAACA
**
585920 ATTGAATGATGTTTTTGACCATTTTTAATGAAAAATGTCATTTCTCAGTGACCATTTAATGAACA
1 ATTGAATGATGTTTTTGACCATTTTTAATGAAAAACATCATTTCTCAGTGACCATTTAATGAACA
* *
585985 GTGACAAAAACTTTTCAGTGCTCAATCACTTCAATTCAATTAAATAT
66 ATGACAAAAACTTTTCAGTGCCCAATCACTTCAATTCAATTAAATAT
* *
586032 ATTGAATGATGTTTTTGACCATTTTTAATGAAAAACATCTTTTCTCATTGACCATTTAATGAACA
1 ATTGAATGATGTTTTTGACCATTTTTAATGAAAAACATCATTTCTCAGTGACCATTTAATGAACA
* * * *
586097 ATGACATAAGCTTTTTAGTGCCCAATTACTT
66 ATGACAAAAACTTTTCAGTGCCCAATCACTT
586128 TATTTCTGAA
Statistics
Matches: 86, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
112 86 1.00
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (112 bp):
ATTGAATGATGTTTTTGACCATTTTTAATGAAAAACATCATTTCTCAGTGACCATTTAATGAACA
ATGACAAAAACTTTTCAGTGCCCAATCACTTCAATTCAATTAAATAT
Found at i:586883 original size:26 final size:26
Alignment explanation
Indices: 586853--586917 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
586843 TTATTGTACT
*
586853 TAATGTAATGTAAGAATTACTGTTTC
1 TAATGTAATGTAAGAATTAATGTTTC
* *
586879 TAATGTAATGTAGGAGTTAATGTTTC
1 TAATGTAATGTAAGAATTAATGTTTC
*
586905 TAATATAATGTAA
1 TAATGTAATGTAA
586918 TGTAATGTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.42
Consensus pattern (26 bp):
TAATGTAATGTAAGAATTAATGTTTC
Found at i:593555 original size:17 final size:17
Alignment explanation
Indices: 593528--593566 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
593518 AATTTACAAT
593528 TAATT-TAAATAATATC
1 TAATTATAAATAATATC
593544 TAATTATAAATAATATC
1 TAATTATAAATAATATC
593561 TAATTA
1 TAATTA
593567 ATTTGATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTATAAATAATATC
Found at i:595141 original size:29 final size:29
Alignment explanation
Indices: 595052--595184 Score: 112
Period size: 29 Copynumber: 4.6 Consensus size: 29
595042 GACAATGATT
* * *
595052 TAATCT-ATGTAGAATTAGGATGGAGATT
1 TAATCTCATGCAGAATCAGGATGGAGATA
**
595080 TAATCTCATAAAGAATCAGGACATGGAG-T-
1 TAATCTCATGCAGAATCAGG--ATGGAGATA
*
595109 TAATCTCATGCAGAATCAGGATGGGGATA
1 TAATCTCATGCAGAATCAGGATGGAGATA
** * *
595138 TAATCTCGGGCAAAATCAGGA-CGATGATA
1 TAATCTCATGCAGAATCAGGATGGA-GATA
*
595167 TAATCTCATACAGAATCA
1 TAATCTCATGCAGAATCA
595185 AGATAATGAT
Statistics
Matches: 84, Mismatches: 15, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
27 5 0.06
28 8 0.10
29 64 0.76
30 1 0.01
31 6 0.07
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (29 bp):
TAATCTCATGCAGAATCAGGATGGAGATA
Found at i:595143 original size:58 final size:57
Alignment explanation
Indices: 595034--595144 Score: 143
Period size: 58 Copynumber: 1.9 Consensus size: 57
595024 GATCTCTCGC
* * * *
595034 AGAACCAGGACAATGATTTAATCTATGTAGAATTAGGATGGAGATTTAATCTCATAA
1 AGAACCAGGACAATGAGTTAATCTATGCAGAATCAGGATGGAGATATAATCTCATAA
* *
595091 AGAATCAGGAC-ATGGAGTTAATCTCATGCAGAATCAGGATGGGGATATAATCTC
1 AGAACCAGGACAAT-GAGTTAATCT-ATGCAGAATCAGGATGGAGATATAATCTC
595145 GGGCAAAATC
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
56 2 0.04
57 19 0.41
58 25 0.54
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.27
Consensus pattern (57 bp):
AGAACCAGGACAATGAGTTAATCTATGCAGAATCAGGATGGAGATATAATCTCATAA
Found at i:595868 original size:21 final size:21
Alignment explanation
Indices: 595844--595896 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
595834 TCAATATGTT
595844 AACAAGTTCAGGGTTGGTTCA
1 AACAAGTTCAGGGTTGGTTCA
595865 AACAAGTTCAGGGTTGGTTCA
1 AACAAGTTCAGGGTTGGTTCA
*
595886 AACCAGTTCAG
1 AACAAGTTCAG
595897 CCATACTGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (21 bp):
AACAAGTTCAGGGTTGGTTCA
Found at i:598950 original size:32 final size:31
Alignment explanation
Indices: 598900--598978 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 31
598890 TGTCTTTAAG
* *
598900 AAATCAATC-AATTCCTCAATCTTTCTAAAATA
1 AAATCATTCAAATT-CTCAAACTTT-TAAAATA
*
598932 AAATCATTCAAATTCTCAAACTTTTTAAATA
1 AAATCATTCAAATTCTCAAACTTTTAAAATA
** *
598963 AGGTCATTCAAGTTCT
1 AAATCATTCAAATTCT
598979 TTATTGCATT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
31 19 0.47
32 17 0.43
33 4 0.10
ACGTcount: A:0.41, C:0.19, G:0.04, T:0.37
Consensus pattern (31 bp):
AAATCATTCAAATTCTCAAACTTTTAAAATA
Found at i:612495 original size:11 final size:11
Alignment explanation
Indices: 612479--612516 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
612469 AACTGATTTA
612479 CTAACTAATTG
1 CTAACTAATTG
* *
612490 CTAACTAACTA
1 CTAACTAATTG
612501 CTAACTAATTG
1 CTAACTAATTG
612512 CTAAC
1 CTAAC
612517 AACTAACAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.39, C:0.24, G:0.05, T:0.32
Consensus pattern (11 bp):
CTAACTAATTG
Found at i:612504 original size:22 final size:21
Alignment explanation
Indices: 612477--612521 Score: 81
Period size: 22 Copynumber: 2.1 Consensus size: 21
612467 ACAACTGATT
612477 TACTAACTAATTGCTAACTAAC
1 TACTAACTAATTGCTAAC-AAC
612499 TACTAACTAATTGCTAACAAC
1 TACTAACTAATTGCTAACAAC
612520 TA
1 TA
612522 ACAAACTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.42, C:0.22, G:0.04, T:0.31
Consensus pattern (21 bp):
TACTAACTAATTGCTAACAAC
Found at i:612528 original size:22 final size:22
Alignment explanation
Indices: 612481--612528 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
612471 CTGATTTACT
*
612481 AACTAATTGCTAACTAACTACT
1 AACTAATTGCTAACTAACTACA
612503 AACTAATTGCTAAC-AACTAACA
1 AACTAATTGCTAACTAACT-ACA
612525 AACT
1 AACT
612529 TTCCAAAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.46, C:0.23, G:0.04, T:0.27
Consensus pattern (22 bp):
AACTAATTGCTAACTAACTACA
Found at i:613291 original size:22 final size:21
Alignment explanation
Indices: 613264--613308 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
613254 ACAACTGATT
613264 TACTAACTAATTGCTAACTAAC
1 TACTAACTAATTGCTAAC-AAC
*
613286 TACTAACTAATTGTTAACAAC
1 TACTAACTAATTGCTAACAAC
613307 TA
1 TA
613309 ACAAACTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.42, C:0.20, G:0.04, T:0.33
Consensus pattern (21 bp):
TACTAACTAATTGCTAACAAC
Found at i:613315 original size:22 final size:22
Alignment explanation
Indices: 613268--613315 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
613258 CTGATTTACT
*
613268 AACTAATTGCTAACTAACTACT
1 AACTAATTGCTAACTAACTACA
*
613290 AACTAATTGTTAAC-AACTAACA
1 AACTAATTGCTAACTAACT-ACA
613312 AACT
1 AACT
613316 TTCCAAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.46, C:0.21, G:0.04, T:0.29
Consensus pattern (22 bp):
AACTAATTGCTAACTAACTACA
Found at i:613638 original size:787 final size:787
Alignment explanation
Indices: 612125--614491 Score: 4509
Period size: 787 Copynumber: 3.0 Consensus size: 787
612115 AATCACCGTC
612125 GATGAATCCTAATTTTTTCTTCGCCAACAACGCAATCCGAATTGAATGACTCCATAGATTATAAT
1 GATGAATCCTAATTTTTTCTTCGCCAACAACGCAATCCGAATTGAATGACTCCATAGATTATAAT
*
612190 TCTCAATCCTAGTCAATTGATGTGAAACCAACATAGTTCTAGTCGTATCAGATAGATGAAGATAA
66 TCTCAATCCTAGTCAATTGATGTGAAACCAACACAGTTCTAGTCGTATCAGATAGATGAAGATAA
612255 AGATGATGGGTGAAATTAATCGAATTCATAGAGAAAGAGGAGAAAGGTAAAGAAAATGATAAGGA
131 AGATGATGGGTGAAATTAATCGAATTCATAGAGAAAGAGGAGAAAGGTAAAGAAAATGATAAGGA
612320 AAGAACCAAGAAAAAATTAGAAAGGTCGAGCAACAAACCGAGACCTTTCCTCTGATATCATGTTA
196 AAGAACCAAGAAAAAATTAGAAAGGTCGAGCAACAAACCGAGACCTTTCCTCTGATATCATGTTA
*
612385 AGATACGTGTGTAAAAAATACCTCATTTTATTATTACTCTAAAATACTTAGTACAATACTGTATT
261 AGACACGTGTGTAAAAAATACCTCATTTTATTATTACTCTAAAATACTTAGTACAATACTGTATT
*
612450 TATACAATTCAATTGCAACAACTGATTTACTAACTAATTGCTAACTAACTACTAACTAATTGCTA
326 TATACAATTCAATTGCAACAACTGATTTACTAACTAATTGCTAACTAACTACTAACTAATTGTTA
612515 ACAACTAACAAACTTTCCAAAAACTACTTCTCAACACAGAATTTTCTCTAAGATATCTTAAAATT
391 ACAACTAACAAACTTTCCAAAAACTACTTCTCAACACAGAATTTTCTCTAAGATATCTTAAAATT
612580 CATTAGAAAATATTTTTCTACTTAACTATAATCTCTACATATGACTGCTACCAATCTCATATCAT
456 CATTAGAAAATATTTTTCTACTTAACTATAATCTCTACATATGACTGCTACCAATCTCATATCAT
612645 CAATTAAATCTATTATCTTACAATAAATCTACCATTACCAACAAATTAATAATAATTAATCCTAG
521 CAATTAAATCTATTATCTTACAATAAATCTACCATTACCAACAAATTAATAATAATTAATCCTAG
612710 GACTAACATTAGCCACCCTATTATCGTACTATCAACCTTAGGACTAACATTAGGCATCCTATTAT
586 GACTAACATTAGCCACCCTATTATCGTACTATCAACCTTAGGACTAACATTAGGCATCCTATTAT
*
612775 TTAGTCTCTAAGATATATATACTCACACAAACAAGACTGAAGAAAAGGGAAACAAATCCAGACAC
651 TTAGTCTCTAAGATATATATACTCACACAAACAAGACTGAAGAAAAGGGAAAAAAATCCAGACAC
612840 ATTGTTCATTATTCAATCATTTTCCTCCTTTCTTCAGACAACTGATTATAACTCTTCATTCCATC
716 ATTGTTCATTATTCAATCATTTTCCTCCTTTCTTCAGACAACTGATTATAACTCTTCATTCCATC
612905 TAAAAAG
781 TAAAAAG
612912 GATGAATCCTAATTTTTTCTTCGCCAACAACGCAATCCGAATTGAATGACTCCATAGATTATAAT
1 GATGAATCCTAATTTTTTCTTCGCCAACAACGCAATCCGAATTGAATGACTCCATAGATTATAAT
* *
612977 TCTCAATCCTAGTTAATTGATGTGAAACCAACACAATTCTAGTCGTATCAGATAGATGAAGATAA
66 TCTCAATCCTAGTCAATTGATGTGAAACCAACACAGTTCTAGTCGTATCAGATAGATGAAGATAA
613042 AGATGATGGGTGAAATTAATCGAATTCATAGAGAAAGAGGAGAAAGGTAAAGAAAATGATAAGGA
131 AGATGATGGGTGAAATTAATCGAATTCATAGAGAAAGAGGAGAAAGGTAAAGAAAATGATAAGGA
*
613107 AAGAACCAAGAAAAAATTAGAAAGGTCAAGCAACAAACCGAGACCTTTCCTCTGATATCATGTTA
196 AAGAACCAAGAAAAAATTAGAAAGGTCGAGCAACAAACCGAGACCTTTCCTCTGATATCATGTTA
613172 AGACACGTGTGTAAAAAATACCTCATTTTATTATTACTCTAAAATACTTAGTACAATACTGTATT
261 AGACACGTGTGTAAAAAATACCTCATTTTATTATTACTCTAAAATACTTAGTACAATACTGTATT
613237 TATACAATTCAATTGCAACAACTGATTTACTAACTAATTGCTAACTAACTACTAACTAATTGTTA
326 TATACAATTCAATTGCAACAACTGATTTACTAACTAATTGCTAACTAACTACTAACTAATTGTTA
*
613302 ACAACTAACAAACTTTCCAAAAACTACTTCTCAACACATAATTTTCTCTAAGATATCTTAAAATT
391 ACAACTAACAAACTTTCCAAAAACTACTTCTCAACACAGAATTTTCTCTAAGATATCTTAAAATT
613367 CATTAGAAAATATTTTTCTACTTAACTATAATCTCTACATATGACTGCTACCAATCTCATATCAT
456 CATTAGAAAATATTTTTCTACTTAACTATAATCTCTACATATGACTGCTACCAATCTCATATCAT
613432 CAATTAAATCTATTATCTTACAATAAATCTACCATTACCAACAAATTAATAATAATTAATCCTAG
521 CAATTAAATCTATTATCTTACAATAAATCTACCATTACCAACAAATTAATAATAATTAATCCTAG
**
613497 GACTAACATTAGCCACCCTATTATTATACTATCAACCTTAGGACTAACATTAGGCATCCTATTAT
586 GACTAACATTAGCCACCCTATTATCGTACTATCAACCTTAGGACTAACATTAGGCATCCTATTAT
*
613562 TTAGTCTCTAAGATATATATACTCACACAAACAAGACTGAAGAAAAGGGAAAAAAATTCAGACAC
651 TTAGTCTCTAAGATATATATACTCACACAAACAAGACTGAAGAAAAGGGAAAAAAATCCAGACAC
* * *
613627 ATTGTTCATTATTCAATCATTTTCCTCATTTCTTCAGACAAATGATTATAACCCTTCATTCCATC
716 ATTGTTCATTATTCAATCATTTTCCTCCTTTCTTCAGACAACTGATTATAACTCTTCATTCCATC
613692 TAAAAAG
781 TAAAAAG
*
613699 GATGAATCCTAATTTTTTCTTCTCCAACAACGCAATCCGAATTGAATGACTCCATAGATTATAAT
1 GATGAATCCTAATTTTTTCTTCGCCAACAACGCAATCCGAATTGAATGACTCCATAGATTATAAT
* * *
613764 TTTCAATCCTAGTCAATTGATGTGAAACCAACACAGTTCTAGCCATATCAGATAGATGAAGATAA
66 TCTCAATCCTAGTCAATTGATGTGAAACCAACACAGTTCTAGTCGTATCAGATAGATGAAGATAA
*
613829 AGATTATGGGTGAAATTAATCGAATTCATAGAGAAAGAGGAGAAAGGTAAAGAAAATGATAAGGA
131 AGATGATGGGTGAAATTAATCGAATTCATAGAGAAAGAGGAGAAAGGTAAAGAAAATGATAAGGA
*
613894 AAGAACCAAGAAAAAATTAGAAAGATCGAGCAACAAACCGAGACCTTTCCTCTGATATCATGTTA
196 AAGAACCAAGAAAAAATTAGAAAGGTCGAGCAACAAACCGAGACCTTTCCTCTGATATCATGTTA
*
613959 AGACACGTGTGTAAAAAATACCTCATTTTATTATTACTCTAAAATACTTAGTACAATACTATATT
261 AGACACGTGTGTAAAAAATACCTCATTTTATTATTACTCTAAAATACTTAGTACAATACTGTATT
*
614024 TATACAATTCAATTGCAATAACTGATTTACTAACTAATTGCTAACTAACTACTAACTAATTGTTA
326 TATACAATTCAATTGCAACAACTGATTTACTAACTAATTGCTAACTAACTACTAACTAATTGTTA
*
614089 ACAACTAACAAACTTTCCAAAAACTACTTCTCAACACAGAATTTTCTTTAAGATATCTTAAAATT
391 ACAACTAACAAACTTTCCAAAAACTACTTCTCAACACAGAATTTTCTCTAAGATATCTTAAAATT
614154 CATTAGAAAATATTTTTCTACTTAACTATAATCTCTACATATGACTGCTACCAATCTCATATCAT
456 CATTAGAAAATATTTTTCTACTTAACTATAATCTCTACATATGACTGCTACCAATCTCATATCAT
*
614219 CAATTAAATCTATTATCTTACAATAAATCTACCATTACCAACAAATTAATAATAATTAATCCTAA
521 CAATTAAATCTATTATCTTACAATAAATCTACCATTACCAACAAATTAATAATAATTAATCCTAG
*
614284 GACTAACATTAGCCACCCTATTATCGTACTATCAACCTTAGGACTAACATTAGACATCCTATTAT
586 GACTAACATTAGCCACCCTATTATCGTACTATCAACCTTAGGACTAACATTAGGCATCCTATTAT
614349 TTAGTCTCTAAGATATATATACTCACACAAACAAGACTGAAGAAAAGGGAAAAAAATCCAGACAC
651 TTAGTCTCTAAGATATATATACTCACACAAACAAGACTGAAGAAAAGGGAAAAAAATCCAGACAC
614414 ATTGTTCATTATTCAATCATTTTCCTCCTTTCTTCAGACAACTGATTATAACTCTTCATTCCATC
716 ATTGTTCATTATTCAATCATTTTCCTCCTTTCTTCAGACAACTGATTATAACTCTTCATTCCATC
614479 TAAAAAG
781 TAAAAAG
614486 GATGAA
1 GATGAA
614492 CCGCCTATAA
Statistics
Matches: 1545, Mismatches: 35, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
787 1545 1.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (787 bp):
GATGAATCCTAATTTTTTCTTCGCCAACAACGCAATCCGAATTGAATGACTCCATAGATTATAAT
TCTCAATCCTAGTCAATTGATGTGAAACCAACACAGTTCTAGTCGTATCAGATAGATGAAGATAA
AGATGATGGGTGAAATTAATCGAATTCATAGAGAAAGAGGAGAAAGGTAAAGAAAATGATAAGGA
AAGAACCAAGAAAAAATTAGAAAGGTCGAGCAACAAACCGAGACCTTTCCTCTGATATCATGTTA
AGACACGTGTGTAAAAAATACCTCATTTTATTATTACTCTAAAATACTTAGTACAATACTGTATT
TATACAATTCAATTGCAACAACTGATTTACTAACTAATTGCTAACTAACTACTAACTAATTGTTA
ACAACTAACAAACTTTCCAAAAACTACTTCTCAACACAGAATTTTCTCTAAGATATCTTAAAATT
CATTAGAAAATATTTTTCTACTTAACTATAATCTCTACATATGACTGCTACCAATCTCATATCAT
CAATTAAATCTATTATCTTACAATAAATCTACCATTACCAACAAATTAATAATAATTAATCCTAG
GACTAACATTAGCCACCCTATTATCGTACTATCAACCTTAGGACTAACATTAGGCATCCTATTAT
TTAGTCTCTAAGATATATATACTCACACAAACAAGACTGAAGAAAAGGGAAAAAAATCCAGACAC
ATTGTTCATTATTCAATCATTTTCCTCCTTTCTTCAGACAACTGATTATAACTCTTCATTCCATC
TAAAAAG
Found at i:614078 original size:22 final size:21
Alignment explanation
Indices: 614051--614095 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
614041 ATAACTGATT
614051 TACTAACTAATTGCTAACTAAC
1 TACTAACTAATTGCTAAC-AAC
*
614073 TACTAACTAATTGTTAACAAC
1 TACTAACTAATTGCTAACAAC
614094 TA
1 TA
614096 ACAAACTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.42, C:0.20, G:0.04, T:0.33
Consensus pattern (21 bp):
TACTAACTAATTGCTAACAAC
Found at i:614102 original size:22 final size:22
Alignment explanation
Indices: 614055--614102 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
614045 CTGATTTACT
*
614055 AACTAATTGCTAACTAACTACT
1 AACTAATTGCTAACTAACTACA
*
614077 AACTAATTGTTAAC-AACTAACA
1 AACTAATTGCTAACTAACT-ACA
614099 AACT
1 AACT
614103 TTCCAAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.46, C:0.21, G:0.04, T:0.29
Consensus pattern (22 bp):
AACTAATTGCTAACTAACTACA
Found at i:619475 original size:14 final size:14
Alignment explanation
Indices: 619456--619482 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
619446 AGTTAGTAAG
619456 TTAGTTAGTTTGTT
1 TTAGTTAGTTTGTT
619470 TTAGTTAGTTTGT
1 TTAGTTAGTTTGT
619483 GAGTCAGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.22, T:0.63
Consensus pattern (14 bp):
TTAGTTAGTTTGTT
Found at i:620000 original size:16 final size:17
Alignment explanation
Indices: 619970--620002 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
619960 TCAATTATAT
619970 TTTTTTATAAAATTTAA
1 TTTTTTATAAAATTTAA
*
619987 TTTTTTA-AATATTTAA
1 TTTTTTATAAAATTTAA
620003 AATAATTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTTTATAAAATTTAA
Found at i:626915 original size:16 final size:16
Alignment explanation
Indices: 626891--626922 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
626881 CAATGGAATT
626891 ATGAAACATGACACCA
1 ATGAAACATGACACCA
*
626907 ATGACACATGACACCA
1 ATGAAACATGACACCA
626923 TTCGATTGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.28, G:0.12, T:0.12
Consensus pattern (16 bp):
ATGAAACATGACACCA
Found at i:627113 original size:31 final size:31
Alignment explanation
Indices: 627075--627138 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
627065 TGACGACCAC
* *
627075 ATCTTAATTAAATAAAAACGAAAGTGATCGT
1 ATCTTAATTAAATAAAAACAAAAGTGACCGT
627106 ATCTTAATTAAATAAAAACAAAAGTGACCGT
1 ATCTTAATTAAATAAAAACAAAAGTGACCGT
627137 AT
1 AT
627139 ATTATATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.28
Consensus pattern (31 bp):
ATCTTAATTAAATAAAAACAAAAGTGACCGT
Found at i:628769 original size:42 final size:42
Alignment explanation
Indices: 628723--628819 Score: 185
Period size: 42 Copynumber: 2.3 Consensus size: 42
628713 AATGCGATAG
628723 TCGACTATCGCAACGAATTTGGAATAAATCGAAACGCGAACT
1 TCGACTATCGCAACGAATTTGGAATAAATCGAAACGCGAACT
*
628765 TCGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACT
1 TCGACTATCGCAACGAATTTGGAATAAATCGAAACGCGAACT
628807 TCGACTATCGCAA
1 TCGACTATCGCAA
628820 TGCGAATATG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.22
Consensus pattern (42 bp):
TCGACTATCGCAACGAATTTGGAATAAATCGAAACGCGAACT
Found at i:628816 original size:21 final size:21
Alignment explanation
Indices: 628678--628825 Score: 85
Period size: 21 Copynumber: 7.1 Consensus size: 21
628668 ATATAATACA
628678 AACTTCGACTATCGCAATGCG
1 AACTTCGACTATCGCAATGCG
* *
628699 AA-TACGTA-AATCGCAATGCG
1 AACTTCG-ACTATCGCAATGCG
*
628719 ATA-GTCGACTATCGCAA--CG
1 A-ACTTCGACTATCGCAATGCG
* * * * *
628738 AATTTGGAATAAATCGAAACGCG
1 AACTTCGACT--ATCGCAATGCG
628761 AACTTCGACTATCGCAA--CG
1 AACTTCGACTATCGCAATGCG
* * * *
628780 AATTTGGAATAAATCGCAACGCG
1 AACTTCGACT--ATCGCAATGCG
628803 AACTTCGACTATCGCAATGCG
1 AACTTCGACTATCGCAATGCG
628824 AA
1 AA
628826 TATGTAAATC
Statistics
Matches: 95, Mismatches: 20, Indels: 24
0.68 0.14 0.17
Matches are distributed among these distances:
18 1 0.01
19 16 0.17
20 16 0.17
21 44 0.46
23 18 0.19
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.22
Consensus pattern (21 bp):
AACTTCGACTATCGCAATGCG
Found at i:629440 original size:6 final size:6
Alignment explanation
Indices: 629409--629473 Score: 102
Period size: 6 Copynumber: 11.5 Consensus size: 6
629399 TCTCGTCTCG
629409 GGTCG- GGTCG- GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
629453 GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGT
629474 AATACATGTC
Statistics
Matches: 59, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 20 0.34
6 39 0.66
ACGTcount: A:0.00, C:0.17, G:0.54, T:0.29
Consensus pattern (6 bp):
GGTCGT
Found at i:631320 original size:21 final size:21
Alignment explanation
Indices: 631262--631321 Score: 102
Period size: 21 Copynumber: 2.9 Consensus size: 21
631252 GTTGCGATAG
*
631262 TCGACTATCGCAACGCGAACT
1 TCGACTATCGCAATGCGAACT
631283 TCGACTATCGCAATGCGAACT
1 TCGACTATCGCAATGCGAACT
*
631304 TCGACTATCGCATTGCGA
1 TCGACTATCGCAATGCGA
631322 TTTACATATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (21 bp):
TCGACTATCGCAATGCGAACT
Found at i:631356 original size:21 final size:21
Alignment explanation
Indices: 631330--631404 Score: 114
Period size: 21 Copynumber: 3.6 Consensus size: 21
631320 GATTTACATA
631330 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
* *
631351 TTCGCATTGCGATAATCTAAG
1 TTCGCATTGCGATAGTCCAAG
*
631372 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
*
631393 TTCGCGTTGCGA
1 TTCGCATTGCGA
631405 ATCTGGAAAC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:631628 original size:19 final size:19
Alignment explanation
Indices: 631574--631633 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
631564 TTTAATTTGA
*
631574 AATAATTTAATT-TTAATAT
1 AATAATTT-ATTATTAATTT
*
631593 ATTAATTTACTTA-TAATTT
1 AATAATTTA-TTATTAATTT
631612 AATAATTTATTATTAATTT
1 AATAATTTATTATTAATTT
631631 AAT
1 AAT
631634 GGTTTCATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
18 4 0.11
19 31 0.89
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
AATAATTTATTATTAATTT
Found at i:631995 original size:38 final size:38
Alignment explanation
Indices: 631924--632004 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
631914 TAATATGTAC
* * * * *
631924 CAAGTACCCATGTATTGAAGTCCAATTGGCCCAAGTAA
1 CAAGTACCCAAGCATTGAAGTCCAATCGACCCAAATAA
* *
631962 CAAGTACCCAAGCATTGAGGTCCAATCGACCCAAATAC
1 CAAGTACCCAAGCATTGAAGTCCAATCGACCCAAATAA
632000 CAAGT
1 CAAGT
632005 TTGAATACTA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.36, C:0.27, G:0.17, T:0.20
Consensus pattern (38 bp):
CAAGTACCCAAGCATTGAAGTCCAATCGACCCAAATAA
Found at i:632642 original size:7 final size:7
Alignment explanation
Indices: 632632--632657 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
632622 CACTTTATTT
632632 AAAAATA
1 AAAAATA
632639 AAAAATA
1 AAAAATA
632646 AAAAATA
1 AAAAATA
632653 AAAAA
1 AAAAA
632658 GTCCATATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:633301 original size:187 final size:187
Alignment explanation
Indices: 633059--633474 Score: 527
Period size: 187 Copynumber: 2.2 Consensus size: 187
633049 TAGGTTGCCT
* * *
633059 CTAAAATGTTATTAGAGTTTAAGATGAT-GAGGTCTTAGA-TTTTCTCACGATAACAAAATTAGT
1 CTAAAATGTTATCAGAGTTTAAGCTGATGGA-GTCTTAGATTTTTCTCACGATAACAAAATAAGT
* * * * * *
633122 TATAAGCTAAAAATGTTAT-AGATATCTATAATAAATGCAGTTGCA-CACAATAATGTTATGGTT
65 TAAAAGCCAAAAATATTATGA-ATATCTATAATAAATACAGTTG-AGCACAAAAATGTCATGGTT
* * ** * ** *
633185 CACTAATAAAGTAAGTTGTGATGTGAAATGTTAATATTTTTATTAATAAAATGGATTGCGC
128 AACTAAGAAAGTAAGTTGCAATATGAAACATTAATA-TTTTATTAATAAAATGGATTGCAC
* *
633246 CTAAAATATTATCAGAGTTTAAGCTGATGGAGCCTTAGATTTTTC-CACGATAACAAAATAAGTT
1 CTAAAATGTTATCAGAGTTTAAGCTGATGGAGTCTTAGATTTTTCTCACGATAACAAAATAAGTT
* *
633310 AAAAGCCAAAAATATTATGAATATCTATAATAAATACGGTTGAGCCCAAAAATGTCATGGTTAAC
66 AAAAGCCAAAAATATTATGAATATCTATAATAAATACAGTTGAGCACAAAAATGTCATGGTTAAC
* *
633375 TAAGAAAGTAGGTTGCAATATGAAACATTAATATTTTATTAATAAAATGGGTTGCAC
131 TAAGAAAGTAAGTTGCAATATGAAACATTAATATTTTATTAATAAAATGGATTGCAC
* * *
633432 CTAAAATGTTACCAGAATTTAGGCTGATGGAGTCTTAGATTTT
1 CTAAAATGTTATCAGAGTTTAAGCTGATGGAGTCTTAGATTTT
633475 CAGTAATCCC
Statistics
Matches: 197, Mismatches: 28, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
186 61 0.31
187 128 0.65
188 8 0.04
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.34
Consensus pattern (187 bp):
CTAAAATGTTATCAGAGTTTAAGCTGATGGAGTCTTAGATTTTTCTCACGATAACAAAATAAGTT
AAAAGCCAAAAATATTATGAATATCTATAATAAATACAGTTGAGCACAAAAATGTCATGGTTAAC
TAAGAAAGTAAGTTGCAATATGAAACATTAATATTTTATTAATAAAATGGATTGCAC
Found at i:644904 original size:30 final size:29
Alignment explanation
Indices: 644849--644923 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 29
644839 TCTTATAGTG
*
644849 TATATTTTATCTTAATTTACTAAATATAT
1 TATATTTTATCTTAAATTACTAAATATAT
* *
644878 TATATTATTATTTTAAATTAGTAAATATAT
1 TATATT-TTATCTTAAATTACTAAATATAT
*
644908 TTTATTCTTATCTTAA
1 TATATT-TTATCTTAA
644924 TTTTAAAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
29 6 0.15
30 33 0.85
ACGTcount: A:0.37, C:0.05, G:0.01, T:0.56
Consensus pattern (29 bp):
TATATTTTATCTTAAATTACTAAATATAT
Found at i:644960 original size:30 final size:31
Alignment explanation
Indices: 644924--644982 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
644914 CTTATCTTAA
*
644924 TTTTAAAATATG-TAA-ACATAAAATATATAT
1 TTTTAAAATAAGTTAATA-ATAAAATATATAT
*
644954 TTTTAAATTAAGTTAATAATAAAATATAT
1 TTTTAAAATAAGTTAATAATAAAATATAT
644983 TTAATAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 10 0.40
31 14 0.56
32 1 0.04
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (31 bp):
TTTTAAAATAAGTTAATAATAAAATATATAT
Found at i:645006 original size:24 final size:25
Alignment explanation
Indices: 644962--645008 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
644952 ATTTTTAAAT
*
644962 TAAGTTAATAATAAAATATATTTAA
1 TAAGTTAATAATAAAAAATATTTAA
644987 TAAGTTAAT-ATAAAAAATATTT
1 TAAGTTAATAATAAAAAATATTT
645009 TTTAAAGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (25 bp):
TAAGTTAATAATAAAAAATATTTAA
Found at i:645012 original size:27 final size:28
Alignment explanation
Indices: 644941--645013 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 28
644931 ATATGTAAAC
*
644941 ATAAAATATATATTTTTAAATTAAGTTAAT
1 ATAAAA-A-ATATTTTTTAATTAAGTTAAT
* *
644971 A-ATAAAATA-TATTTAA-TAAGTTAAT
1 ATAAAAAATATTTTTTAATTAAGTTAAT
644996 ATAAAAAATATTTTTTAA
1 ATAAAAAATATTTTTTAA
645014 AGTATATATA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
25 10 0.28
26 12 0.33
27 9 0.25
28 1 0.03
29 3 0.08
30 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (28 bp):
ATAAAAAATATTTTTTAATTAAGTTAAT
Found at i:646818 original size:4 final size:4
Alignment explanation
Indices: 646803--646851 Score: 89
Period size: 4 Copynumber: 12.2 Consensus size: 4
646793 TATTCATGGA
*
646803 GGAG GAAG GGAG GGAG GGAG GGAG GGAG GGAG GGAG GGAG GGAG GGAG
1 GGAG GGAG GGAG GGAG GGAG GGAG GGAG GGAG GGAG GGAG GGAG GGAG
646851 G
1 G
646852 AAAAGGCCTC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.27, C:0.00, G:0.73, T:0.00
Consensus pattern (4 bp):
GGAG
Found at i:649708 original size:21 final size:21
Alignment explanation
Indices: 649679--649731 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
649669 ATTCTGACTA
649679 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
649700 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
649721 TCGCAATGCGA
1 TCGCATTGCGA
649732 ATACGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:649746 original size:20 final size:20
Alignment explanation
Indices: 649721--649773 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
649711 TTTTCCTAAT
649721 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
649741 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
649761 TCGCAACGCGAAT
1 TCGCAATGCGAAT
649774 CTTACCATTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:649993 original size:22 final size:22
Alignment explanation
Indices: 649968--650033 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
649958 GGCGACATCT
*
649968 GTCCCCATCTCCGATGAAATCA
1 GTCCCCATCTCCGACGAAATCA
*
649990 GTCCCCATCTCCGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
* * *
650012 GTCTCCATCTCCGGCAAAATCA
1 GTCCCCATCTCCGACGAAATCA
650034 TTCACGGGTC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.26, C:0.38, G:0.14, T:0.23
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:650409 original size:33 final size:34
Alignment explanation
Indices: 650360--650432 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 34
650350 ACTATCGCAA
* * *
650360 TGCGATTCTGTCGTTGCGAT-TTTCATTTCGCGT
1 TGCGATTCTGTCGTTGCGATAGTTAAATTCGCGT
650393 TGCGATTCTTGT-GTTGCGATAGTTAAATTCGCGT
1 TGCGATTC-TGTCGTTGCGATAGTTAAATTCGCGT
650427 TGCGAT
1 TGCGAT
650433 AGTCATTTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
33 16 0.46
34 19 0.54
ACGTcount: A:0.14, C:0.18, G:0.26, T:0.42
Consensus pattern (34 bp):
TGCGATTCTGTCGTTGCGATAGTTAAATTCGCGT
Found at i:650443 original size:20 final size:20
Alignment explanation
Indices: 650403--650472 Score: 95
Period size: 20 Copynumber: 3.5 Consensus size: 20
650393 TGCGATTCTT
* **
650403 GTGTTGCGATAGTTAAATTC
1 GTGTTGCGATAGTCATTTTC
*
650423 GCGTTGCGATAGTCATTTTC
1 GTGTTGCGATAGTCATTTTC
*
650443 GTATTGCGATAGTCATTTTC
1 GTGTTGCGATAGTCATTTTC
650463 GTGTTGCGAT
1 GTGTTGCGAT
650473 TTAAAGTTTC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.19, C:0.14, G:0.26, T:0.41
Consensus pattern (20 bp):
GTGTTGCGATAGTCATTTTC
Found at i:652400 original size:20 final size:20
Alignment explanation
Indices: 652371--652421 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
652361 AGAATAGTTT
652371 ACTATCGCAATACGAAAATG
1 ACTATCGCAATACGAAAATG
* **
652391 ACTATTGCAACGCGAAAATG
1 ACTATCGCAATACGAAAATG
652411 ACTATCGCAAT
1 ACTATCGCAAT
652422 GAGAGAATCG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.22
Consensus pattern (20 bp):
ACTATCGCAATACGAAAATG
Found at i:652468 original size:19 final size:18
Alignment explanation
Indices: 652427--652475 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
652417 GCAATGAGAG
* *
652427 AATCGCAATGCG-ATTAG
1 AATCGCAATGCGAATGAA
652444 AATCGCAATGCGAAATGAA
1 AATCGCAATGCG-AATGAA
*
652463 AATCGCATTGCGA
1 AATCGCAATGCGA
652476 TTCTCTCGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 12 0.44
18 1 0.04
19 14 0.52
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.20
Consensus pattern (18 bp):
AATCGCAATGCGAATGAA
Found at i:652556 original size:20 final size:20
Alignment explanation
Indices: 652482--652570 Score: 97
Period size: 20 Copynumber: 4.5 Consensus size: 20
652472 GCGATTCTCT
652482 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
** *
652502 TATTGTGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* * **
652522 CATTGTGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
**
652542 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
652562 CGTTGCGAT
1 CGTTGCGAT
652571 TTTAAGTTTC
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:652580 original size:20 final size:20
Alignment explanation
Indices: 652518--652580 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
652508 GATAGTCAAA
* * * *
652518 TTCGCATTGTGATAGTCATT
1 TTCGCGTTGCGATAGTAAGT
* *
652538 TTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATAGTAAGT
**
652558 TTCGCGTTGCGATTTTAAGT
1 TTCGCGTTGCGATAGTAAGT
652578 TTC
1 TTC
652581 AGATTCTATT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.16, C:0.17, G:0.22, T:0.44
Consensus pattern (20 bp):
TTCGCGTTGCGATAGTAAGT
Found at i:653145 original size:21 final size:21
Alignment explanation
Indices: 653054--653152 Score: 85
Period size: 21 Copynumber: 4.7 Consensus size: 21
653044 GACTCACCTG
*
653054 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
* *
653076 T-TTCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
*
653096 TCATC-TCTCAAGAGTCCCCTC
1 TCATCGT-TCAAGAGGCCCCTC
* * * *
653117 ACACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
*
653138 TCATCGTTGAAGAGG
1 TCATCGTTCAAGAGG
653153 TCCATCCCAA
Statistics
Matches: 60, Mismatches: 14, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
20 4 0.07
21 54 0.90
22 2 0.03
ACGTcount: A:0.22, C:0.33, G:0.20, T:0.24
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:654563 original size:14 final size:14
Alignment explanation
Indices: 654544--654579 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
654534 ATTGTTTAAT
654544 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
654558 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
654572 TGATTTGT
1 TGATTTGT
654580 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:654824 original size:33 final size:33
Alignment explanation
Indices: 654763--654857 Score: 136
Period size: 33 Copynumber: 2.8 Consensus size: 33
654753 CTAAATTCGT
*
654763 GTTGCGATTTTCATTTTCGCATTACGATTCTCTC
1 GTTGCGATTTTCA-TTTCGCATTGCGATTCTCTC
654797 GTTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 GTTGCGATTTTCATTTCGCATTGCGATTCTCTC
** *
654830 GTTGCGATAGTCATTTCCGCGTTGCGAT
1 GTTGCGATTTTCATTT-CGCATTGCGAT
654858 AGTCAATTCC
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 33 0.59
34 23 0.41
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.43
Consensus pattern (33 bp):
GTTGCGATTTTCATTTCGCATTGCGATTCTCTC
Found at i:654854 original size:20 final size:20
Alignment explanation
Indices: 654829--654922 Score: 136
Period size: 20 Copynumber: 4.7 Consensus size: 20
654819 GCGATTCTCT
654829 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
654849 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
*
654869 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
* *
654889 TGTTGCGATAGTTATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
654909 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
654923 AATGAATGTC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
20 63 0.97
21 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:656000 original size:14 final size:14
Alignment explanation
Indices: 655981--656007 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
655971 TCCCGTGGCA
655981 TTTTCTTTGGGGAC
1 TTTTCTTTGGGGAC
655995 TTTTCTTTGGGGA
1 TTTTCTTTGGGGA
656008 TTTCTTCTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.11, G:0.30, T:0.52
Consensus pattern (14 bp):
TTTTCTTTGGGGAC
Found at i:656241 original size:24 final size:24
Alignment explanation
Indices: 656207--656260 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
656197 CTGAAAAATC
656207 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* * *
656231 ATCAAAGTCCGGGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
656255 ATCAAA
1 ATCAAA
656261 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:657153 original size:20 final size:20
Alignment explanation
Indices: 657101--657154 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
657091 AAATTCAGTA
* *
657101 TTGCAATAGTCAAAATCTCG
1 TTGCGATAGTCAGAATCTCG
657121 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
657141 TTGCGATAGTCAGA
1 TTGCGATAGTCAGA
657155 TTCGCATTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCTCG
Found at i:657164 original size:20 final size:20
Alignment explanation
Indices: 657100--657164 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
657090 GAAATTCAGT
* * *
657100 ATTGCAATAGTCAAAATCTC
1 ATTGCGATAGTCAGAATCGC
* *
657120 GTTGCGATAGTCAGAATCTC
1 ATTGCGATAGTCAGAATCGC
* *
657140 GTTGCGATAGTCAGATTCGC
1 ATTGCGATAGTCAGAATCGC
657160 ATTGC
1 ATTGC
657165 AATTTACGTA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.31
Consensus pattern (20 bp):
ATTGCGATAGTCAGAATCGC
Found at i:657177 original size:20 final size:20
Alignment explanation
Indices: 657154--657304 Score: 266
Period size: 20 Copynumber: 7.5 Consensus size: 20
657144 CGATAGTCAG
*
657154 ATTCGCATTGCAATTTACGT
1 ATTCGCATTGCGATTTACGT
657174 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
657194 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
657214 ATTCGCATTACGATTTACGT
1 ATTCGCATTGCGATTTACGT
657234 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
657254 ATTCGCATTACGATTTACGT
1 ATTCGCATTGCGATTTACGT
657274 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
657294 ATTCGTATTGC
1 ATTCGCATTGC
657305 AAATTAGGAA
Statistics
Matches: 125, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 125 1.00
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:657335 original size:21 final size:21
Alignment explanation
Indices: 657306--657348 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
657296 TCGTATTGCA
657306 AATTAGGAAAATCGCAACGCG
1 AATTAGGAAAATCGCAACGCG
* *
657327 AATTTGGAAAATCGCAATGCG
1 AATTAGGAAAATCGCAACGCG
657348 A
1 A
657349 TAGTTAGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (21 bp):
AATTAGGAAAATCGCAACGCG
Found at i:657420 original size:19 final size:19
Alignment explanation
Indices: 657396--657446 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
657386 CGATACTGGA
657396 GATCGCGTTGCGAATTATC
1 GATCGCGTTGCGAATTATC
657415 GATCGCGTTGCGAATTATC
1 GATCGCGTTGCGAATTATC
*
657434 GATCGCATTGCGA
1 GATCGCGTTGCGA
657447 TTTAGTTGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (19 bp):
GATCGCGTTGCGAATTATC
Found at i:659141 original size:16 final size:16
Alignment explanation
Indices: 659122--659152 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
659112 TATGAATATG
*
659122 ACTTGTAATTGATTCA
1 ACTTGTAAATGATTCA
659138 ACTTGTAAATGATTC
1 ACTTGTAAATGATTC
659153 CGCTTATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (16 bp):
ACTTGTAAATGATTCA
Found at i:659360 original size:14 final size:13
Alignment explanation
Indices: 659338--659375 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
659328 ACTTTCTATA
659338 TTAATTATAATTC
1 TTAATTATAATTC
*
659351 TTATATTATAAATC
1 TTA-ATTATAATTC
659365 TTAATTATAAT
1 TTAATTATAAT
659376 CATTAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (13 bp):
TTAATTATAATTC
Found at i:659381 original size:13 final size:12
Alignment explanation
Indices: 659338--659381 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 12
659328 ACTTTCTATA
659338 TTAATTATAATTC
1 TTAATTATAA-TC
659351 TTATATTATAAATC
1 TTA-ATTAT-AATC
659365 TTAATTATAATC
1 TTAATTATAATC
659377 ATTAA
1 -TTAA
659382 ATTTACTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 4 0.14
13 12 0.43
14 10 0.36
15 2 0.07
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (12 bp):
TTAATTATAATC
Found at i:659395 original size:27 final size:28
Alignment explanation
Indices: 659333--659395 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 28
659323 AATTTACTTT
*
659333 CTATATTAATTATAATTCTTATATTATA
1 CTATATTAATTATAATTCTTAAATTATA
* *
659361 -AATCTTAATTATAA-TCATTAAATT-TA
1 CTATATTAATTATAATTC-TTAAATTATA
659387 CTATATTAA
1 CTATATTAA
659396 ATACTTTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
26 4 0.14
27 24 0.86
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (28 bp):
CTATATTAATTATAATTCTTAAATTATA
Found at i:659791 original size:20 final size:21
Alignment explanation
Indices: 659766--659819 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
659756 ATTCAACGCT
659766 ATTATTCAGCGCTGAATG-AA
1 ATTATTCAGCGCTGAATGTAA
*
659786 ATTATTCAGCGCTGAATGTTGA
1 ATTATTCAGCGCTGAATG-TAA
659808 ATTATTCAGCGC
1 ATTATTCAGCGC
659820 GTTTGTTTCG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 18 0.58
22 13 0.42
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (21 bp):
ATTATTCAGCGCTGAATGTAA
Found at i:659876 original size:27 final size:27
Alignment explanation
Indices: 659838--659901 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
659828 CGCACCTCTG
659838 AATGATTCAGCATCAAAGTACATTCTA
1 AATGATTCAGCATCAAAGTACATTCTA
* * *
659865 AATGATTCAGCATCAAAGTGCATTTTG
1 AATGATTCAGCATCAAAGTACATTCTA
659892 AATGATTCAG
1 AATGATTCAG
659902 AGCTATTATC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (27 bp):
AATGATTCAGCATCAAAGTACATTCTA
Found at i:659990 original size:15 final size:15
Alignment explanation
Indices: 659950--659992 Score: 68
Period size: 16 Copynumber: 2.8 Consensus size: 15
659940 CATACAGAGT
659950 GTTTAATCATTCAGC
1 GTTTAATCATTCAGC
*
659965 ATTTGAATCATTCAGC
1 GTTT-AATCATTCAGC
659981 GTTTAATCATTC
1 GTTTAATCATTC
659993 TTAAGTAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.44
16 14 0.56
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.42
Consensus pattern (15 bp):
GTTTAATCATTCAGC
Found at i:660317 original size:94 final size:92
Alignment explanation
Indices: 660262--660448 Score: 266
Period size: 94 Copynumber: 2.0 Consensus size: 92
660252 TTATTTTAGT
* *
660262 CACTCATATTTAACTATAGATCAAAGCCCTTAGACTTTAGTCCTAAATTATATTATTTTAAATAT
1 CACTCATATTTAACTATAGACCAAAACCCTTAGACTTTAGTCCTAAATTATATTATTTTAAATAT
*
660327 TATTAATTATAATTTATCATATTTTGATG
66 TATT-ATTAGAATTTAT-ATATTTTGATG
* * * *
660356 CACTCATGTTTAACTGTAGACCAAAACCCTTAGACTTTAGTCTTAAATTATATTATTTTAAATGT
1 CACTCATATTTAACTATAGACCAAAACCCTTAGACTTTAGTCCTAAATTATATTATTTTAAATAT
*
660421 TATTATTTATAATTTATCATATTTTGAT
66 TATTA-TTAGAATTTAT-ATATTTTGAT
660449 AATGCATTTA
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
93 1 0.01
94 85 0.99
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (92 bp):
CACTCATATTTAACTATAGACCAAAACCCTTAGACTTTAGTCCTAAATTATATTATTTTAAATAT
TATTATTAGAATTTATATATTTTGATG
Found at i:660617 original size:2 final size:2
Alignment explanation
Indices: 660610--660650 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
660600 AATGTATACT
660610 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
660651 CCATCTTGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:661066 original size:24 final size:25
Alignment explanation
Indices: 661036--661087 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 25
661026 TCTCCTCTCC
661036 TCGACT-CCTTCTCTTTCTTTACCA
1 TCGACTCCCTTCTCTTTCTTTACCA
661060 TCGACTCACCCCTTCTCTTTCTTTACCA
1 TCGACT---CCCTTCTCTTTCTTTACCA
661088 CTGACTCACC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 6 0.25
28 18 0.75
ACGTcount: A:0.13, C:0.40, G:0.04, T:0.42
Consensus pattern (25 bp):
TCGACTCCCTTCTCTTTCTTTACCA
Found at i:661082 original size:28 final size:28
Alignment explanation
Indices: 661042--661101 Score: 104
Period size: 28 Copynumber: 2.1 Consensus size: 28
661032 CTCCTCGACT
661042 CCTTCTCTTTCTTTACCA-TCGACTCACC
1 CCTTCTCTTTCTTTACCACT-GACTCACC
661070 CCTTCTCTTTCTTTACCACTGACTCACC
1 CCTTCTCTTTCTTTACCACTGACTCACC
661098 CCTT
1 CCTT
661102 AAGTAATCCC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 30 0.97
29 1 0.03
ACGTcount: A:0.13, C:0.43, G:0.03, T:0.40
Consensus pattern (28 bp):
CCTTCTCTTTCTTTACCACTGACTCACC
Found at i:662290 original size:15 final size:15
Alignment explanation
Indices: 662268--662319 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
662258 TGAGACATTA
662268 CCCGCCCCGCATCCG
1 CCCGCCCCGCATCCG
* *
662283 CTCGCCCCGCATCTG
1 CCCGCCCCGCATCCG
* *
662298 CCCACCCCACATCCG
1 CCCGCCCCGCATCCG
662313 CCCGCCC
1 CCCGCCC
662320 AGCTAAATAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.10, C:0.65, G:0.15, T:0.10
Consensus pattern (15 bp):
CCCGCCCCGCATCCG
Found at i:665086 original size:20 final size:20
Alignment explanation
Indices: 665061--665105 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
665051 AACAAAATGG
665061 GTATCGATACTGCTACAGTA
1 GTATCGATACTGCTACAGTA
665081 GTATCGATACTGCTACAGTA
1 GTATCGATACTGCTACAGTA
*
665101 ATATC
1 GTATC
665106 AAGCCCAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (20 bp):
GTATCGATACTGCTACAGTA
Found at i:665523 original size:33 final size:33
Alignment explanation
Indices: 665462--665525 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
665452 AATGGGTTTT
* *
665462 GGTTCTAGCTTAGCCTGCTAAAAGCTAGGGAAA
1 GGTTCTAGCTTAGCCCGCTAAAAACTAGGGAAA
*
665495 GGTTCTAGTTTAGCCCG-TGAAAAACTAGGGA
1 GGTTCTAGCTTAGCCCGCT-AAAAACTAGGGA
665526 GTTTGTTAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 1 0.04
33 26 0.96
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (33 bp):
GGTTCTAGCTTAGCCCGCTAAAAACTAGGGAAA
Found at i:666226 original size:48 final size:48
Alignment explanation
Indices: 666155--666251 Score: 167
Period size: 48 Copynumber: 2.0 Consensus size: 48
666145 ACTTCGTTTA
*
666155 GTTTTTTGTTTAAGTGTCACAACTTGGAACATTTTGATGATGCTATTT
1 GTTTTTTGTTTAAGTGTCACAACTTGGAACATTATGATGATGCTATTT
* *
666203 GTTTTTTGTTTAATTGTCACAACTTGGAACATTATGATGATGTTATTT
1 GTTTTTTGTTTAAGTGTCACAACTTGGAACATTATGATGATGCTATTT
666251 G
1 G
666252 CTTTGTTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.24, C:0.09, G:0.19, T:0.48
Consensus pattern (48 bp):
GTTTTTTGTTTAAGTGTCACAACTTGGAACATTATGATGATGCTATTT
Found at i:666712 original size:14 final size:14
Alignment explanation
Indices: 666604--666710 Score: 102
Period size: 14 Copynumber: 8.0 Consensus size: 14
666594 AACATGATAC
*
666604 ATATATACTTACAT
1 ATATATACTTATAT
666618 ATATATA-TT-TAT
1 ATATATACTTATAT
*
666630 GTATATACTTATAT
1 ATATATACTTATAT
666644 ATACTATACTTATAT
1 ATA-TATACTTATAT
*
666659 GTATATAC-T-TAT
1 ATATATACTTATAT
666671 AT-TATAC-TATAT
1 ATATATACTTATAT
*
666683 ATACT-TATTTATAT
1 ATA-TATACTTATAT
*
666697 TTATATACTTATAT
1 ATATATACTTATAT
666711 TTTTTGTAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
11 6 0.08
12 17 0.22
13 8 0.10
14 33 0.43
15 13 0.17
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.51
Consensus pattern (14 bp):
ATATATACTTATAT
Found at i:666712 original size:20 final size:19
Alignment explanation
Indices: 666639--666712 Score: 80
Period size: 19 Copynumber: 3.8 Consensus size: 19
666629 TGTATATACT
*
666639 TATATATACTATACTTATA
1 TATATATACTATATTTATA
*
666658 TGTATATACT-TATATTATA
1 TATATATACTATAT-TTATA
666677 CTATATATACT-TATTTATA
1 -TATATATACTATATTTATA
*
666696 TTTATATACTTATATTT
1 TATATATAC-TATATTT
666713 TTTGTAAATA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
18 10 0.21
19 20 0.43
20 17 0.36
ACGTcount: A:0.36, C:0.08, G:0.01, T:0.54
Consensus pattern (19 bp):
TATATATACTATATTTATA
Found at i:667083 original size:2 final size:2
Alignment explanation
Indices: 667078--667213 Score: 73
Period size: 2 Copynumber: 67.5 Consensus size: 2
667068 GCTATATACT
* * * * *
667078 TA TA TA TA TT TA TG TA TA TA CT- TA TG TA CA TA TA TCA TA CA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA T-A TA TA TA
* *
667121 TA TA CA TA TA TA TA TA TA TA TA TA TT TA TA TA T- TA TA TA CT-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * * * * * *
667162 TCA TA CA CT- TA TA TA TA TT TT TA TT TA TT TA TT TA TA TA TA TT
1 T-A TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
667205 TA TA TA TA T
1 TA TA TA TA T
667214 TATTTTGTTC
Statistics
Matches: 99, Mismatches: 26, Indels: 18
0.69 0.18 0.13
Matches are distributed among these distances:
1 4 0.04
2 90 0.91
3 5 0.05
ACGTcount: A:0.39, C:0.07, G:0.01, T:0.53
Consensus pattern (2 bp):
TA
Found at i:668647 original size:13 final size:13
Alignment explanation
Indices: 668629--668673 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
668619 TTCATTTGGG
668629 TTTTTTTTAAATA
1 TTTTTTTTAAATA
668642 TTTTTTTTAAAATA
1 TTTTTTTT-AAATA
* * *
668656 TATTTTGTAGATA
1 TTTTTTTTAAATA
668669 TTTTT
1 TTTTT
668674 AATGTCGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 16 0.59
14 11 0.41
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (13 bp):
TTTTTTTTAAATA
Found at i:668648 original size:14 final size:15
Alignment explanation
Indices: 668629--668661 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
668619 TTCATTTGGG
*
668629 TTTTTTTTAAATAT-
1 TTTTTTTAAAATATA
668643 TTTTTTTAAAATATA
1 TTTTTTTAAAATATA
668658 TTTT
1 TTTT
668662 GTAGATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTTTAAAATATA
Found at i:668969 original size:162 final size:160
Alignment explanation
Indices: 668685--669109 Score: 484
Period size: 162 Copynumber: 2.6 Consensus size: 160
668675 ATGTCGTTTG
* * * * *
668685 TGTGGAAAATCTATGGAAAAGTCTACCGACTATAAGGAAAGTGTATTTTC-GACGATTTCTCATA
1 TGTGGAAAATCTATGGAAAAGTCTCCCGACTATAAGGGAAGTG-AGTTTCTGAGGATTGCTCATA
*
668749 CAAAAGGGTA-CTCTTTTTATTCGAATATTTTTCTTAAGTTTTGAATACAGTGATATATTATTCT
65 CAAAAGGGTATC-CTTTTTATTTGAATATTTTTCTTAAGTTTTGAATACA--GATATATTATTCT
*
668813 TAATATTAAATAAAATCAAGACAATGTCATTTTA
127 TAATAATAAATAAAATCAAGACAATGTCATTTTA
*
668847 TGTGGAAAATCTATGGTAAAA-TCTCCCGACTACAAGGGAAGTGAGTTTCTGAGGATTGCTCATA
1 TGTGGAAAATCTATGG-AAAAGTCTCCCGACTATAAGGGAAGTGAGTTTCTGAGGATTGCTCATA
** * *
668911 CAAAATAGTATCCTTTTTATTTGAATATTTTTCTTAATTTTTAGATATAACA-ATATATTATTTT
65 CAAAAGGGTATCCTTTTTATTTGAATATTTTTCTTAAGTTTT-GA-AT-ACAGATATATTATTCT
* * *
668975 TAATAATAAATAAAATCAAGGCAATGTCGTTTTG
127 TAATAATAAATAAAATCAAGACAATGTCATTTTA
* * * * * * * * * *
669009 CGTGAAAAATTTATGAAAAAGCCTCTCGATTATAAGGGAAGCGCGTTT-TCGAGGATTGTTCATA
1 TGTGGAAAATCTATGGAAAAGTCTCCCGACTATAAGGGAAGTGAGTTTCT-GAGGATTGCTCATA
* *
669073 TAAAAGGGTAT-CATTTTATTTGAATATTTTTCTTAAG
65 CAAAAGGGTATCCTTTTTATTTGAATATTTTTCTTAAG
669110 ATATATATAT
Statistics
Matches: 224, Mismatches: 31, Indels: 17
0.82 0.11 0.06
Matches are distributed among these distances:
161 34 0.15
162 178 0.79
163 7 0.03
164 2 0.01
165 3 0.01
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (160 bp):
TGTGGAAAATCTATGGAAAAGTCTCCCGACTATAAGGGAAGTGAGTTTCTGAGGATTGCTCATAC
AAAAGGGTATCCTTTTTATTTGAATATTTTTCTTAAGTTTTGAATACAGATATATTATTCTTAAT
AATAAATAAAATCAAGACAATGTCATTTTA
Found at i:669859 original size:12 final size:12
Alignment explanation
Indices: 669842--669866 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
669832 GTTACAGTCG
669842 GAGGAGATGAAC
1 GAGGAGATGAAC
669854 GAGGAGATGAAC
1 GAGGAGATGAAC
669866 G
1 G
669867 GGGAAGAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.44, T:0.08
Consensus pattern (12 bp):
GAGGAGATGAAC
Found at i:674039 original size:11 final size:11
Alignment explanation
Indices: 674011--674059 Score: 53
Period size: 12 Copynumber: 4.3 Consensus size: 11
674001 CCGGATTATA
674011 AATATTATATT
1 AATATTATATT
*
674022 AAAATTATATT
1 AATATTATATT
* *
674033 ATTATTATTAAT
1 AATATTA-TATT
674045 AATATTATTATT
1 AATATTA-TATT
674057 AAT
1 AAT
674060 GTTACATATT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
11 15 0.48
12 16 0.52
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
AATATTATATT
Found at i:674051 original size:18 final size:17
Alignment explanation
Indices: 674011--674058 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
674001 CCGGATTATA
674011 AATATTA-TATTAAAAT
1 AATATTATTATTAAAAT
* *
674027 TATATTATTATTATTAAT
1 AATATTATTATTA-AAAT
674045 AATATTATTATTAA
1 AATATTATTATTAA
674059 TGTTACATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 6 0.23
17 5 0.19
18 15 0.58
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
AATATTATTATTAAAAT
Found at i:680779 original size:131 final size:130
Alignment explanation
Indices: 680546--680806 Score: 513
Period size: 131 Copynumber: 2.0 Consensus size: 130
680536 CAAGAATTTA
680546 AAGATGTATTTGCTTGGTCATACGAAGATATGCCAGGTCTGGATACAGACTGTTGTCTATAAACT
1 AAGATGTATTTGCTTGGTCATACGAAGATATGCCAGGTCTGGATACAGACTGTTGTCTATAAACT
680611 GTCGATAATGCCTAATGGTAAGCCCGTACAACAGAAATTGAGAAGATGAGACCTGAGATGCTGCT
66 GTCGATAATGCCTAATGGTAAGCCCGTACAACAGAAATTGAGAAGATGAGACCTGAGATGCTGCT
680676 AAGATGTATTTGCTTGGTCATACGAAGATATGCCAGGTCTGGATACAGACTGGTTGTCTATAAAC
1 AAGATGTATTTGCTTGGTCATACGAAGATATGCCAGGTCTGGATACAGACT-GTTGTCTATAAAC
680741 TGTCGATAATGCCTAATGGTAAGCCCGTACAACAGAAATTGAGAAGATGAGACCTGAGATGCTGC
65 TGTCGATAATGCCTAATGGTAAGCCCGTACAACAGAAATTGAGAAGATGAGACCTGAGATGCTGC
680806 T
130 T
680807 CAAAATTAAA
Statistics
Matches: 130, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
130 51 0.39
131 79 0.61
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (130 bp):
AAGATGTATTTGCTTGGTCATACGAAGATATGCCAGGTCTGGATACAGACTGTTGTCTATAAACT
GTCGATAATGCCTAATGGTAAGCCCGTACAACAGAAATTGAGAAGATGAGACCTGAGATGCTGCT
Found at i:682163 original size:33 final size:33
Alignment explanation
Indices: 682126--682229 Score: 92
Period size: 33 Copynumber: 3.2 Consensus size: 33
682116 GAGGCTTATT
682126 GAGAAGATGACTGAAACTTATAAAGATTGGCAC
1 GAGAAGATGACTGAAACTTATAAAGATTGGCAC
* * * * *
682159 GAGAAGTTTAATGAGAAC--ATTAAGA--GGCTTATT
1 GAGAAGATGACTGA-AACTTATAAAGATTGGC--A-C
682192 GAGAAGATGACTG-AACTTATAAAGATTGGCAC
1 GAGAAGATGACTGAAACTTATAAAGATTGGCAC
682224 GAGAAG
1 GAGAAG
682230 TTGTCATTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 17
0.66 0.12 0.21
Matches are distributed among these distances:
30 3 0.06
31 3 0.06
32 13 0.25
33 28 0.53
34 3 0.06
35 3 0.06
ACGTcount: A:0.41, C:0.10, G:0.26, T:0.23
Consensus pattern (33 bp):
GAGAAGATGACTGAAACTTATAAAGATTGGCAC
Found at i:682726 original size:1 final size:1
Alignment explanation
Indices: 682722--682822 Score: 76
Period size: 1 Copynumber: 101.0 Consensus size: 1
682712 ATGAAAAATG
* ** ** ** * *
682722 AAAAAAATAAAAAAAATGAAAAAAAAAAAAAAAAAATGAAAAAAAAATGAAAAAAAAATAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*** * *
682787 AATGGAAAAAAAAAAAAAAAAGAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
682823 TAAAGGGGGG
Statistics
Matches: 78, Mismatches: 22, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 78 1.00
ACGTcount: A:0.86, C:0.01, G:0.07, T:0.06
Consensus pattern (1 bp):
A
Found at i:682727 original size:9 final size:9
Alignment explanation
Indices: 682706--682815 Score: 75
Period size: 9 Copynumber: 11.8 Consensus size: 9
682696 CTTAAAGATA
682706 AAAAAAATG
1 AAAAAAATG
682715 --AAAAATG
1 AAAAAAATG
*
682722 AAAAAAATA
1 AAAAAAATG
682731 AAAAAAATG
1 AAAAAAATG
**
682740 AAAAAAAAAAA
1 --AAAAAAATG
682751 AAAAAAATG
1 AAAAAAATG
682760 AAAAAAAAATG
1 --AAAAAAATG
682771 AAAAAAAAAT-
1 --AAAAAAATG
682781 AGAAAAAATGG
1 A-AAAAAAT-G
*
682792 AAAAAAA-A
1 AAAAAAATG
*
682800 AAAAAAAAG
1 AAAAAAATG
682809 AAAAAAA
1 AAAAAAA
682816 CAAAAAATAA
Statistics
Matches: 83, Mismatches: 8, Indels: 20
0.75 0.07 0.18
Matches are distributed among these distances:
7 7 0.08
8 8 0.10
9 35 0.42
10 6 0.07
11 27 0.33
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.07
Consensus pattern (9 bp):
AAAAAAATG
Found at i:682736 original size:11 final size:11
Alignment explanation
Indices: 682722--682826 Score: 87
Period size: 11 Copynumber: 10.0 Consensus size: 11
682712 ATGAAAAATG
682722 AAAAAAAT--A
1 AAAAAAATAAA
*
682731 AAAAAAAT-GA
1 AAAAAAATAAA
682741 AAAAAAA-AAA
1 AAAAAAATAAA
*
682751 AAAAAAATGAA
1 AAAAAAATAAA
*
682762 AAAAAAATGAA
1 AAAAAAATAAA
*
682773 AAAAAAATAGA
1 AAAAAAATAAA
***
682784 AAAAATGGAAA
1 AAAAAAATAAA
682795 AAAAAAA-AAA
1 AAAAAAATAAA
682805 AAAGAAAA-AAA
1 AAA-AAAATAAA
*
682816 CAAAAAATAAA
1 AAAAAAATAAA
682827 GGGGGGTTCA
Statistics
Matches: 80, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
9 8 0.10
10 26 0.32
11 46 0.57
ACGTcount: A:0.86, C:0.01, G:0.07, T:0.07
Consensus pattern (11 bp):
AAAAAAATAAA
Found at i:682757 original size:38 final size:39
Alignment explanation
Indices: 682705--682815 Score: 111
Period size: 43 Copynumber: 2.8 Consensus size: 39
682695 GCTTAAAGAT
**
682705 AAAAAAAATGAAAAATGAAAAAAATAAAAAAAAT-GAAA
1 AAAAAAAAAAAAAAATGAAAAAAATAAAAAAAATAGAAA
682743 AAAAAAAAAAAAAAATGAAAAAAAAATGAAAAAAAAATAGAAA
1 AAAAAAAAAAAAAAATG--AAAAAAAT--AAAAAAAATAGAAA
*** *
682786 AAATGGAAAAAAAAA--AAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAATGAAAAAAATAAAAAAA
682816 CAAAAAATAA
Statistics
Matches: 62, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
37 7 0.11
38 15 0.24
39 7 0.11
40 8 0.13
42 9 0.15
43 16 0.26
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.07
Consensus pattern (39 bp):
AAAAAAAAAAAAAAATGAAAAAAATAAAAAAAATAGAAA
Found at i:682820 original size:20 final size:19
Alignment explanation
Indices: 682699--682822 Score: 90
Period size: 19 Copynumber: 6.1 Consensus size: 19
682689 GGTTTTGCTT
* **
682699 AAAGATAAAAAAAATGAAA
1 AAAGAAAAAAAAAAAAAAA
* *
682718 AATG-AAAAAAATAAAAAA
1 AAAGAAAAAAAAAAAAAAA
*
682736 AATGAAAAAAAAAAAAAAA
1 AAAGAAAAAAAAAAAAAAA
682755 AAATGAAAAAAAAATGAAAAAAA
1 AAA-G-AAAAAAAA--AAAAAAA
682778 AATAGAAAAAATGGAAAAAAAAA
1 AA-AGAAAAAA---AAAAAAAAA
682801 AAA-AAAAGAAAAAAACAAAA
1 AAAGAAAA-AAAAAAA-AAAA
682821 AA
1 AA
682823 TAAAGGGGGG
Statistics
Matches: 87, Mismatches: 7, Indels: 21
0.76 0.06 0.18
Matches are distributed among these distances:
18 14 0.16
19 23 0.26
20 7 0.08
21 12 0.14
22 9 0.10
23 19 0.22
24 1 0.01
25 2 0.02
ACGTcount: A:0.84, C:0.01, G:0.08, T:0.07
Consensus pattern (19 bp):
AAAGAAAAAAAAAAAAAAA
Found at i:684177 original size:55 final size:55
Alignment explanation
Indices: 684093--684209 Score: 200
Period size: 55 Copynumber: 2.1 Consensus size: 55
684083 TGAAGCAAAA
*
684093 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGAGG-GCAGACGCGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAG-GGAGCAGACGCGATCGTT
684148 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATCGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATCGTT
*
684203 GGAGATT
1 GAAGATT
684210 ATTGTTCGAG
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
54 2 0.03
55 57 0.97
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (55 bp):
GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATCGTT
Found at i:684265 original size:52 final size:52
Alignment explanation
Indices: 684205--684904 Score: 1096
Period size: 52 Copynumber: 13.6 Consensus size: 52
684195 CGATCGTTGG
684205 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
* *
684257 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
684309 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTA-GA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
* *
684360 A-ATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
684411 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
*
684463 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGTAGACCCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
* * * * *
684515 AGATTATTTTTCGAGTTCTAGTCCCTGAAG-AAATT-GACAGTCTCGTAAGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
*
684565 AGATTATTGTTCGAG-TCTAGTCCATGAAGAAAATTGGGCAGACCCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
*
684616 AGATTATTGTTCGAGTTCTAGTCCTTGAAG-AAATTGGGCA-ACCCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
* * * *
684666 AGATTATTTTTCGAGTTCTAGTCCCTGAAGAAAATTGGACAGTCTCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
* * *
684718 AGATTATTGTTCGACTT-TA-TCCCTG-AGAAAATTGGGCAGTCTCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
*
684767 AGATTATTGTTCGAGTTCTAGTCCCCTGAAGAAAATTGGACAGACCCGTAGGA
1 AGATTATTGTTCGAGTTCTAGT-CCCTGAAGAAAATTGGGCAGACCCGTAGGA
* * *
684820 AGATTACTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
* *
684872 AGATTATCGTTCGAGTTCTACTCCCTGAAGAAA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAA
684905 TAGAGAGCGA
Statistics
Matches: 596, Mismatches: 41, Indels: 22
0.90 0.06 0.03
Matches are distributed among these distances:
49 52 0.09
50 120 0.20
51 59 0.10
52 323 0.54
53 42 0.07
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (52 bp):
AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
Found at i:684381 original size:154 final size:156
Alignment explanation
Indices: 684205--684904 Score: 1150
Period size: 154 Copynumber: 4.5 Consensus size: 156
684195 CGATCGTTGG
* *
684205 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCG
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGAAGATTATTGTTCG
* *
684270 AGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGAAGATTATTGTTCGAGTTCTAGTCCCT
66 AGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCGAGTTCTAGTCCCT
684335 GAAGAAAATTGGGCAGACCCGTA-GA
131 GAAGAAAATTGGGCAGACCCGTAGGA
684360 A-ATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGAAGATTATTGTTCG
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGAAGATTATTGTTCG
684424 AGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCGAGTTCTAGTCCCT
66 AGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCGAGTTCTAGTCCCT
*
684489 GAAGAAAATTGGGTAGACCCGTAGGA
131 GAAGAAAATTGGGCAGACCCGTAGGA
* * *
684515 AGATTATTTTTCGAGTTCTAGTCCCTGAAG-AAATT-GACAGTCTCGTAAGAAGATTATTGTTCG
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGAAGATTATTGTTCG
* *
684578 AG-TCTAGTCCATGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCGAGTTCTAGTCCTT
66 AGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCGAGTTCTAGTCCCT
684642 GAAG-AAATTGGGCA-ACCCGTAGGA
131 GAAGAAAATTGGGCAGACCCGTAGGA
* *
684666 AGATTATTTTTCGAGTTCTAGTCCCTGAAGAAAATTGGACAGTCTCGTAGGAAGATTATTGTTCG
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGAAGATTATTGTTCG
* * *
684731 ACTT-TA-TCCCTG-AGAAAATTGGGCAGTCTCGTAGGAAGATTATTGTTCGAGTTCTAGTCCCC
66 AGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCGAGTTCTAGT-CCC
*
684793 TGAAGAAAATTGGACAGACCCGTAGGA
130 TGAAGAAAATTGGGCAGACCCGTAGGA
* *
684820 AGATTACTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGAAGATTATCGTTCG
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGAAGATTATTGTTCG
*
684885 AGTTCTACTCCCTGAAGAAA
66 AGTTCTAGTCCCTGAAGAAA
684905 TAGAGAGCGA
Statistics
Matches: 511, Mismatches: 23, Indels: 20
0.92 0.04 0.04
Matches are distributed among these distances:
151 84 0.16
152 26 0.05
153 103 0.20
154 249 0.49
155 11 0.02
156 33 0.06
157 5 0.01
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (156 bp):
AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGAAGATTATTGTTCG
AGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCGAGTTCTAGTCCCT
GAAGAAAATTGGGCAGACCCGTAGGA
Found at i:684410 original size:102 final size:104
Alignment explanation
Indices: 684205--684904 Score: 1096
Period size: 102 Copynumber: 6.8 Consensus size: 104
684195 CGATCGTTGG
684205 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCG
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCG
* *
684270 AGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
66 AGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
684309 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTA-GAA-ATTATTGTTCG
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCG
* *
684372 AGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
66 AGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
684411 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCG
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCG
*
684476 AGTTCTAGTCCCTGAAGAAAATTGGGTAGACCCGTAGGA
66 AGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
* * * * *
684515 AGATTATTTTTCGAGTTCTAGTCCCTGAAG-AAATT-GACAGTCTCGTAAGAAGATTATTGTTCG
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCG
*
684578 AG-TCTAGTCCATGAAGAAAATTGGGCAGACCCGTAGGA
66 AGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
* *
684616 AGATTATTGTTCGAGTTCTAGTCCTTGAAG-AAATTGGGCA-ACCCGTAGGAAGATTATTTTTCG
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCG
* * *
684679 AGTTCTAGTCCCTGAAGAAAATTGGACAGTCTCGTAGGA
66 AGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
* * *
684718 AGATTATTGTTCGACTT-TA-TCCCTG-AGAAAATTGGGCAGTCTCGTAGGAAGATTATTGTTCG
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCG
*
684780 AGTTCTAGTCCCCTGAAGAAAATTGGACAGACCCGTAGGA
66 AGTTCTAGT-CCCTGAAGAAAATTGGGCAGACCCGTAGGA
* * * *
684820 AGATTACTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGAAGATTATCGTTCG
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCG
*
684885 AGTTCTACTCCCTGAAGAAA
66 AGTTCTAGTCCCTGAAGAAA
684905 TAGAGAGCGA
Statistics
Matches: 554, Mismatches: 32, Indels: 20
0.91 0.05 0.03
Matches are distributed among these distances:
99 2 0.00
100 15 0.03
101 119 0.21
102 219 0.40
103 13 0.02
104 142 0.26
105 44 0.08
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (104 bp):
AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCG
AGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
Found at i:685055 original size:357 final size:351
Alignment explanation
Indices: 684210--684960 Score: 835
Period size: 357 Copynumber: 2.1 Consensus size: 351
684200 GTTGGAGATT
* * * ** *
684210 ATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCGAGTTC
1 ATTGTTCGAG-TCTACTCCATGAAGAAAATAGGGCAGACCCGTAGGAAGAAGATTGTTCAAGTTC
* * * * * * * *
684275 TAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGAAGATTA-TTGTTCGAGTTCTAGTCCCTGAAG
65 TAGTCCTTGAAG-AAA-T-GGCA---AC-TAGGAAAATCACTT-ATCAAGTTCAAG-CCATGAAG
* *
684339 AAAATTGGGCAGACCCGTAGAAATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCT
121 AAAATTGGACAGACCCGTAGAAATTATTGTTCGACTTCTAGTCCCTGAAGAAAATTGGGCAGTCT
*
684404 CGTAGGAAGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGAAGATTA
186 CGTAGGAAGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGACAGACCCGTAGGAAGATTA
* * **
684469 TTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGTAGACCCGTAGGAAGATTATTTTTCGAGTTCT
251 CTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATCGTTCGAGTTCT
* * * * * **
684534 AGTCCCTGAAGAAATTGACAGTCTCGTAAGAAGATT
316 ACTCCCTGAAGAAATAGACAGACCCGTAAAAAGAAG
* * ** *
684570 ATTGTTCGAGTCTAGTCCATGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCGAGTTCT
1 ATTGTTCGAGTCTACTCCATGAAGAAAATAGGGCAGACCCGTAGGAAGAAGATTGTTCAAGTTCT
* * * * * * *
684635 AGTCCTTGAAGAAATTGGGCAACCCGTAGGAAGATTATTTTTCGAGTTCTAGTCCCTGAAGAAAA
66 AGTCCTTGAAGAAA-T-GGCAA--C-TAGGAAAATCACTTATCAAGTTCAAG-CCATGAAGAAAA
* *
684700 TTGGACAGTCTCGTAGGAAGATTATTGTTCGACTT-TA-TCCCTG-AGAAAATTGGGCAGTCTCG
125 TTGGACAGACCCGTA-GAA-ATTATTGTTCGACTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCG
684762 TAGGAAGATTATTGTTCGAGTTCTAGTCCCCTGAAGAAAATTGGACAGACCCGTAGGAAGATTAC
188 TAGGAAGATTATTGTTCGAGTTCTAGT-CCCTGAAGAAAATTGGACAGACCCGTAGGAAGATTAC
* *
684827 TGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGAAGATTATCGTTCGAGTTCTA
252 TGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATCGTTCGAGTTCTA
*
684892 CTCCCTGAAGAAATAGAGAGCGAACCCGTAAAAAGAAG
317 CTCCCTGAAGAAATAGACA--G-ACCCGTAAAAAGAAG
*
684930 ATTGTTCGAGTTCTATACTCCCTGAAGAAAA
1 ATTGTTCGAG-TC--TACTCCATGAAGAAAA
684961 AGAGAGCGAA
Statistics
Matches: 355, Mismatches: 24, Indels: 21
0.89 0.06 0.05
Matches are distributed among these distances:
356 46 0.13
357 167 0.47
358 17 0.05
359 79 0.22
360 30 0.08
361 2 0.01
363 14 0.04
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (351 bp):
ATTGTTCGAGTCTACTCCATGAAGAAAATAGGGCAGACCCGTAGGAAGAAGATTGTTCAAGTTCT
AGTCCTTGAAGAAATGGCAACTAGGAAAATCACTTATCAAGTTCAAGCCATGAAGAAAATTGGAC
AGACCCGTAGAAATTATTGTTCGACTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGAAGA
TTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGACAGACCCGTAGGAAGATTACTGTTCGAGT
TCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATCGTTCGAGTTCTACTCCCTGAA
GAAATAGACAGACCCGTAAAAAGAAG
Found at i:685175 original size:11 final size:12
Alignment explanation
Indices: 685153--685206 Score: 60
Period size: 11 Copynumber: 4.8 Consensus size: 12
685143 TTTTGTCCGG
*
685153 ATTATAAATATT
1 ATTATTAATATT
685165 A-TATTAATATT
1 ATTATTAATATT
*
685176 A-TATTATTATT
1 ATTATTAATATT
*
685187 ATTATTTATA-T
1 ATTATTAATATT
685198 ATTATTAAT
1 ATTATTAAT
685207 GTTAGATTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
11 29 0.81
12 7 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
ATTATTAATATT
Found at i:685204 original size:14 final size:14
Alignment explanation
Indices: 685161--685204 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
685151 GGATTATAAA
685161 TATTATATTA-ATAT
1 TATTAT-TTATATAT
685175 TA-TA-TTAT-TAT
1 TATTATTTATATAT
685186 TATTATTTATATAT
1 TATTATTTATATAT
685200 TATTA
1 TATTA
685205 ATGTTAGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
11 8 0.31
12 2 0.08
13 6 0.23
14 10 0.38
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TATTATTTATATAT
Found at i:689092 original size:12 final size:12
Alignment explanation
Indices: 689075--689099 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
689065 GTTACAGCCG
689075 GAGGAGATGAAC
1 GAGGAGATGAAC
689087 GAGGAGATGAAC
1 GAGGAGATGAAC
689099 G
1 G
689100 GGGAAGAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.44, T:0.08
Consensus pattern (12 bp):
GAGGAGATGAAC
Found at i:695709 original size:22 final size:22
Alignment explanation
Indices: 695681--695725 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
695671 AGAAAGGAAA
695681 GGCGTTTTTTAAACATTTATAG
1 GGCGTTTTTTAAACATTTATAG
695703 GGCGTTTTTTAAACATTTATAG
1 GGCGTTTTTTAAACATTTATAG
695725 G
1 G
695726 ACGTGTTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.44
Consensus pattern (22 bp):
GGCGTTTTTTAAACATTTATAG
Found at i:703828 original size:2 final size:2
Alignment explanation
Indices: 703821--703854 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
703811 AAACCGTTTG
703821 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
703855 CCCTTTTCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:707968 original size:237 final size:239
Alignment explanation
Indices: 707364--708082 Score: 1352
Period size: 240 Copynumber: 3.0 Consensus size: 239
707354 ATGCAAGGAC
*
707364 CACAACCCATTCTCATATAACTATAATGTCAGCTTCATTATTGACATTAATTGATGACCAAGTCT
1 CACAACACATTCTCATATAACTATAATGTCAGCTTCATTATTGACATTAATTGATGACCAAGTCT
*
707429 TTGTTTAATTGTTTCATAACGTAAATTTTTTAATTGTAAATAAATATTAAAAATTAATCAACGTT
66 TTGTTTAATTGTTTCATAACGTAAATTTTTTAATTGTAAATAAATATTAAAAATTAATCACCGTT
707494 TTCTTTAGAGATTATGTGATAACTTTATCGGTCAACCGAATAACGTTAAGAGGGGTTGAATTGAC
131 TTCTTTAGAGATTATGTGATAACTTTATCGGTCAACCGAATAACGTTAAGAGGGGTTGAATTGAC
707559 TTTTTTAAGAATTTAATGGAAGTAATCGAAAAAATAAACTTTTTG
196 -TTTTTAAGAATTTAATGGAAGTAATCGAAAAAATAAACTTTTTG
707604 CACAACACATTCTCATATAACTATAATGTCAGCTTCATTATTGACATTAATTGATGACCAAGTCT
1 CACAACACATTCTCATATAACTATAATGTCAGCTTCATTATTGACATTAATTGATGACCAAGTCT
707669 TTGTTTAATTGTTTCATAACGTAAATTTTTTAATTGTAAATAAATATTAAAAATTAATCACCGTT
66 TTGTTTAATTGTTTCATAACGTAAATTTTTTAATTGTAAATAAATATTAAAAATTAATCACCGTT
707734 TTCTTTAGAGATTATGTGATAACTTTATCGGTCAACCGAATAACGTTAAGA-GGGTTGAATTGAC
131 TTCTTTAGAGATTATGTGATAACTTTATCGGTCAACCGAATAACGTTAAGAGGGGTTGAATTGAC
707798 TTTTTAAGAATTTAATGGAAGTAATCGAAAAAATAAACTTTTTG
196 TTTTTAAGAATTTAATGGAAGTAATCGAAAAAATAAACTTTTTG
707842 CACAACACATTCTCATATAACTAT-ATGTCAGCTTCATTATTGACATTAATTGATGACCAAGTCT
1 CACAACACATTCTCATATAACTATAATGTCAGCTTCATTATTGACATTAATTGATGACCAAGTCT
707906 TTGTTTAATTGTTTCATAACGTAAATTTTTTAATTGTAAATAAATATTAAAAATTAATCACCGTT
66 TTGTTTAATTGTTTCATAACGTAAATTTTTTAATTGTAAATAAATATTAAAAATTAATCACCGTT
* *
707971 TTCTTTAGAGATTATGTGATAACTTTATCGGTCAACCGAATAAAGCTAAGAGGGGTTGAATTGAC
131 TTCTTTAGAGATTATGTGATAACTTTATCGGTCAACCGAATAACGTTAAGAGGGGTTGAATTGA-
**
708036 CTTTTTAAGAATTTGGTGGAAGTAATCGAAAAAATAAACTTTTTG
195 CTTTTTAAGAATTTAATGGAAGTAATCGAAAAAATAAACTTTTTG
708081 CA
1 CA
708083 GACAGATTTA
Statistics
Matches: 471, Mismatches: 6, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
237 154 0.33
238 80 0.17
239 58 0.12
240 179 0.38
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.38
Consensus pattern (239 bp):
CACAACACATTCTCATATAACTATAATGTCAGCTTCATTATTGACATTAATTGATGACCAAGTCT
TTGTTTAATTGTTTCATAACGTAAATTTTTTAATTGTAAATAAATATTAAAAATTAATCACCGTT
TTCTTTAGAGATTATGTGATAACTTTATCGGTCAACCGAATAACGTTAAGAGGGGTTGAATTGAC
TTTTTAAGAATTTAATGGAAGTAATCGAAAAAATAAACTTTTTG
Found at i:714761 original size:44 final size:44
Alignment explanation
Indices: 714668--714763 Score: 104
Period size: 44 Copynumber: 2.2 Consensus size: 44
714658 AATGACGATA
* **
714668 TTGATCCACCTCCTTCTGTGATGGAATTGAACGTAATGTCAGTG
1 TTGATCCACCTCCTTCTGTGATAGAATTGAACAAAATGTCAGTG
* * * * *
714712 CTGATCTACCTCCTTCTGTGATAGATTTGAGCAAAATGT-TGATG
1 TTGATCCACCTCCTTCTGTGATAGAATTGAACAAAATGTCAG-TG
714756 TTGATCCA
1 TTGATCCA
714764 AATCCTTATG
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
43 1 0.02
44 40 0.98
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (44 bp):
TTGATCCACCTCCTTCTGTGATAGAATTGAACAAAATGTCAGTG
Found at i:714894 original size:132 final size:132
Alignment explanation
Indices: 714671--714910 Score: 338
Period size: 132 Copynumber: 1.8 Consensus size: 132
714661 GACGATATTG
* * *
714671 ATCCACCTCCTTCTGTGATGGAATTGAACGTAATGTCAGTGCTGATCTACCTCCTTCTGTGATAG
1 ATCCACCTCATTCTGCGATGGAATCGAACGTAATGTCAGTGCTGATCTACCTCCTTCTGTGATAG
* ** * *
714736 ATTTGAGCAAAATGTTGATGTTGATCCAAATCCTTATGCGATGGATATGAGTGAAATGAAAACGT
66 AATCAAGCAAAAAGTTGATGTTGATCCAAATCCATATGCGATGGATATGAGTGAAATGAAAACGT
714801 CA
131 CA
* * *
714803 ATCCACCTCATTTTGCGATGGAATCGAACG-AGATGTCGGTGCTGATCTACCTCCTTTTGTGATA
1 ATCCACCTCATTCTGCGATGGAATCGAACGTA-ATGTCAGTGCTGATCTACCTCCTTCTGTGATA
* * *
714867 TAATCAAGCAAAAAGTTGATGTTGATCCAACTCCATATGTGATG
65 GAATCAAGCAAAAAGTTGATGTTGATCCAAATCCATATGCGATG
714911 AATGAAAATA
Statistics
Matches: 93, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
131 1 0.01
132 92 0.99
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (132 bp):
ATCCACCTCATTCTGCGATGGAATCGAACGTAATGTCAGTGCTGATCTACCTCCTTCTGTGATAG
AATCAAGCAAAAAGTTGATGTTGATCCAAATCCATATGCGATGGATATGAGTGAAATGAAAACGT
CA
Found at i:715027 original size:44 final size:44
Alignment explanation
Indices: 714978--715129 Score: 137
Period size: 44 Copynumber: 3.5 Consensus size: 44
714968 GATCTACCTC
* * *
714978 CTTCTGTGATAGAATTGAGCTAAAAGTTGACGCTGATCCAACTT
1 CTTCTGTGATAGAATTGAGCAAAAAGTTGATGTTGATCCAACTT
* * * * * * *
715022 CTTCTGCGAT-GGATTCGAGCGAAATGTTGGTGTTGAT-CTACCT
1 CTTCTGTGATAGAATT-GAGCAAAAAGTTGATGTTGATCCAACTT
** *
715065 CATTCTGTGATAGAAACGAGCAAAAAGTTGATGTTGATCCAACTC
1 C-TTCTGTGATAGAATTGAGCAAAAAGTTGATGTTGATCCAACTT
* *
715110 CTTCTGTGATGGATTTGAGC
1 CTTCTGTGATAGAATTGAGC
715130 GAACAAATGT
Statistics
Matches: 81, Mismatches: 23, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
43 9 0.11
44 66 0.81
45 6 0.07
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (44 bp):
CTTCTGTGATAGAATTGAGCAAAAAGTTGATGTTGATCCAACTT
Found at i:715073 original size:88 final size:88
Alignment explanation
Indices: 714967--715132 Score: 251
Period size: 88 Copynumber: 1.9 Consensus size: 88
714957 GTGTGTGTGC
* ** * *
714967 TGATCTACCTCCTTCTGTGATAGAATTGAGCTAAAAGTTGACGCTGATCCAACTTCTTCTGCGAT
1 TGATCTACCTCATTCTGTGATAGAAACGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGAT
715032 GGATTCGAGCGAAATGTTGGTGT
66 GGATTCGAGCGAAATGTTGGTGT
* * *
715055 TGATCTACCTCATTCTGTGATAGAAACGAGCAAAAAGTTGATGTTGATCCAACTCCTTCTGTGAT
1 TGATCTACCTCATTCTGTGATAGAAACGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGAT
*
715120 GGATTTGAGCGAA
66 GGATTCGAGCGAA
715133 CAAATGTCGA
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
88 69 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.32
Consensus pattern (88 bp):
TGATCTACCTCATTCTGTGATAGAAACGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGAT
GGATTCGAGCGAAATGTTGGTGT
Found at i:715531 original size:91 final size:91
Alignment explanation
Indices: 715220--715757 Score: 745
Period size: 91 Copynumber: 5.9 Consensus size: 91
715210 GAGCCAGAAG
* * * *
715220 GAAC-AGTTCTTTTCATTATGAACTTCTTCTCCTTCGTTGGACAAGTTCTTCTCATTATGAACTC
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGACGAGTTCTTCTCATTATGAACTC
* * **
715284 TTCGTTGGAAATGTTGAGTTAAGGTT
66 TCCATTGGAAATGTTGAGCCAAGGTT
* * * *
715310 GAAACAAGCTCTTTTCATTATGAACTTCTTCTCCTTCGTTGGACGAGTTCTTCTCATTATGAACT
1 G-AACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGACGAGTTCTTCTCATTATGAACT
* * *
715375 CTTCGTTGGAAATGTTGAGCTAAGGTT
65 CTCCATTGGAAATGTTGAGCCAAGGTT
* *
715402 GAAACAAGCTCTTCTCATTATGAACTTTTTCTCCCTCATTGGACGAGTTCTTCTCATTATGAACT
1 G-AACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGACGAGTTCTTCTCATTATGAACT
* * * *
715467 CTCCATTGAAAATCTTGAACCAAAGTT
65 CTCCATTGGAAATGTTGAGCCAAGGTT
* * *
715494 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGAATGAGTTATTCTCATTATGAACTC
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGACGAGTTCTTCTCATTATGAACTC
* *
715559 TCCACTAGAAATGTTGAGCCAAGGTT
66 TCCATTGGAAATGTTGAGCCAAGGTT
* * *
715585 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATTTGATGAGTTCTTCTCATTATGAACTC
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGACGAGTTCTTCTCATTATGAACTC
*
715650 TCCACTGGAAATGTTGAGCCAAGGTT
66 TCCATTGGAAATGTTGAGCCAAGGTT
* *
715676 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCCCATTGGATGAGTTCTTCTCATTATGAACTC
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGACGAGTTCTTCTCATTATGAACTC
* *
715741 TCCACTGGCAATGTTGA
66 TCCATTGGAAATGTTGA
715758 TCGATTTATC
Statistics
Matches: 412, Mismatches: 34, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
90 1 0.00
91 246 0.60
92 165 0.40
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (91 bp):
GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGACGAGTTCTTCTCATTATGAACTC
TCCATTGGAAATGTTGAGCCAAGGTT
Found at i:716324 original size:67 final size:67
Alignment explanation
Indices: 716154--716459 Score: 303
Period size: 66 Copynumber: 4.6 Consensus size: 67
716144 CAATCAAGGG
* * * * *
716154 TTTTGTGTTTCAAGAGGAATTGTCT-ATAGGGAGACAAAATC-CAGTTCAAGGGAAACGATCTCA
1 TTTTATGTTTCAAGAGAAACTGTCTCA-AGGGAGACAAAATCAC-GTTAAAGGGAAACGACCTCA
716217 AAGA
64 AAGA
* *
716221 --TCAGTGTTTCAAG-GAAAACTGTCTCAAGAGAGACAAAA-CACGTTTAAAGGGAAACGACCTC
1 TTTTA-TGTTTCAAGAG-AAACTGTCTCAAGGGAGACAAAATCACG-TTAAAGGGAAACGACCTC
716282 AAAGA
63 AAAGA
* * *
716287 TTTTATGTTTCAAGAGGAATTGTCT-ATAGGGAGACAAAATTCA-GTTAAAGGGAAACGATCTCA
1 TTTTATGTTTCAAGAGAAACTGTCTCA-AGGGAGACAAAA-TCACGTTAAAGGGAAACGACCTCA
716350 AAGA
64 AAGA
* * * * *
716354 --TCAGTGTTTCAAG-GAAAACTGTCTCAAGAGATACAAAA-CTCGTTTAAAGGGAAACAACCTC
1 TTTTA-TGTTTCAAGAG-AAACTGTCTCAAGGGAGACAAAATCACG-TTAAAGGGAAACGACCTC
716415 AAAGA
63 AAAGA
716420 TTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAAT
1 TTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAAT
716460 TTTTTTCAAG
Statistics
Matches: 196, Mismatches: 23, Indels: 39
0.76 0.09 0.15
Matches are distributed among these distances:
64 1 0.01
65 8 0.04
66 97 0.49
67 81 0.41
68 7 0.04
69 2 0.01
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.25
Consensus pattern (67 bp):
TTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATCACGTTAAAGGGAAACGACCTCAAA
GA
Found at i:716371 original size:133 final size:133
Alignment explanation
Indices: 716154--716460 Score: 526
Period size: 133 Copynumber: 2.3 Consensus size: 133
716144 CAATCAAGGG
* * *
716154 TTTTGTGTTTCAAGAGGAATTGTCTATAGGGAGACAAAATCCAGTTCAAGGGAAACGATCTCAAA
1 TTTTATGTTTCAAGAGGAATTGTCTATAGGGAGACAAAATTCAGTTAAAGGGAAACGATCTCAAA
*
716219 GATCAGTGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAACACGTTTAAAGGGAAACGACCTCAA
66 GATCAGTGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAACACGTTTAAAGGGAAACAACCTCAA
716284 AGA
131 AGA
716287 TTTTATGTTTCAAGAGGAATTGTCTATAGGGAGACAAAATTCAGTTAAAGGGAAACGATCTCAAA
1 TTTTATGTTTCAAGAGGAATTGTCTATAGGGAGACAAAATTCAGTTAAAGGGAAACGATCTCAAA
* *
716352 GATCAGTGTTTCAAGGAAAACTGTCTCAAGAGATACAAAACTCGTTTAAAGGGAAACAACCTCAA
66 GATCAGTGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAACACGTTTAAAGGGAAACAACCTCAA
716417 AGA
131 AGA
* *
716420 TTTTATGTTTCAAGAGAAACTGTCTCA-AGGGAGACAAAATT
1 TTTTATGTTTCAAGAGGAATTGTCT-ATAGGGAGACAAAATT
716461 TTTTTCAAGA
Statistics
Matches: 165, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
133 164 0.99
134 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (133 bp):
TTTTATGTTTCAAGAGGAATTGTCTATAGGGAGACAAAATTCAGTTAAAGGGAAACGATCTCAAA
GATCAGTGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAACACGTTTAAAGGGAAACAACCTCAA
AGA
Done.