Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007952.1 Hibiscus syriacus cultivar Beakdansim tig00110377_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: 3169409
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 16
Found at i:752140 original size:16 final size:16
Alignment explanation
Indices: 752121--752172 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
752111 TTATTATTTG
752121 ATAATAATAATAATAT
1 ATAATAATAATAATAT
*
752137 ATAATAATAGT-A-AT
1 ATAATAATAATAATAT
*
752151 ATAATAATAATATTAT
1 ATAATAATAATAATAT
752167 ATAATA
1 ATAATA
752173 TTATTATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
14 12 0.39
15 1 0.03
16 18 0.58
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
ATAATAATAATAATAT
Found at i:752490 original size:99 final size:98
Alignment explanation
Indices: 752319--752720 Score: 597
Period size: 99 Copynumber: 4.1 Consensus size: 98
752309 AATCATACTC
* *
752319 TGAGGTTTTACATATGACCCAAAGGATTTAATTTTCTTGAACATTAAATGAGAAACTTTGGTAAT
1 TGAGGTTTTACAGATGACCC-GAGGATTTAATTTTCTTGAACATTAAATGAGAAACTTTGGTAAT
*
752384 CGCTTTCTCATGTTCATGCGAAAACATCCTACCA
65 CGCTTTCTCATTTTCATGCGAAAACATCCTACCA
*
752418 TGAGGTTTTACAGATGGCCCAGAGGATTTAATTTTCTTGAACATTAAATGAGAAACTTTGGTAAT
1 TGAGGTTTTACAGATGACCC-GAGGATTTAATTTTCTTGAACATTAAATGAGAAACTTTGGTAAT
* * * ** * *
752483 CACTTTCTCACTTTAATAAGAAAACATCATACCC
65 CGCTTTCTCATTTTCATGCGAAAACATCCTACCA
*
752517 TGAGGTTTTACAGATGACCCGAAGGATTTAATTTTCTTGAACATTAAATGAGAAACTTTTGTAAT
1 TGAGGTTTTACAGATGACCCG-AGGATTTAATTTTCTTGAACATTAAATGAGAAACTTTGGTAAT
* *
752582 CGTTTTCTCATTTTCATGCGAAAACATCCTACCC
65 CGCTTTCTCATTTTCATGCGAAAACATCCTACCA
* * *
752616 TGAGGTTTTAAAGATGACCCGACGGATTTAATTTTCTTGAACATTAAATGAGAAAATTTTGTAAT
1 TGAGGTTTTACAGATGACCCGA-GGATTTAATTTTCTTGAACATTAAATGAGAAACTTTGGTAAT
* *
752681 CGCTTTCTTATTTTCATGCGAAAACATACTACCA
65 CGCTTTCTCATTTTCATGCGAAAACATCCTACCA
752715 TGAGGT
1 TGAGGT
752721 CTAACGGATG
Statistics
Matches: 275, Mismatches: 26, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
98 2 0.01
99 273 0.99
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (98 bp):
TGAGGTTTTACAGATGACCCGAGGATTTAATTTTCTTGAACATTAAATGAGAAACTTTGGTAATC
GCTTTCTCATTTTCATGCGAAAACATCCTACCA
Found at i:759523 original size:47 final size:46
Alignment explanation
Indices: 759433--759523 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 46
759423 ATGTACACCA
* * *
759433 TAACCTCATGTTTTCTAGTTCCATGCTTTGTTTGGAAAAATAAACC
1 TAACCGCATGATTTCTAGTTCCATGCTTTATTTGGAAAAATAAACC
759479 TAACCGCATGATTTCTAGTTCACATGCATTTATTT-GAAAAATAAA
1 TAACCGCATGATTTCTAGTTC-CATGC-TTTATTTGGAAAAATAAA
759524 ATAATACTAC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
46 19 0.47
47 15 0.38
48 6 0.15
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (46 bp):
TAACCGCATGATTTCTAGTTCCATGCTTTATTTGGAAAAATAAACC
Found at i:761888 original size:3 final size:3
Alignment explanation
Indices: 761882--761912 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
761872 TTATTATTTG
761882 ATA ATA ATA ATA ATA ATA TATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
761913 TATAGACTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:761904 original size:16 final size:15
Alignment explanation
Indices: 761885--761916 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
761875 TTATTTGATA
761885 ATAATAATAATAATAT
1 ATAATAATAAT-ATAT
761901 ATAATAATAATATAT
1 ATAATAATAATATAT
761916 A
1 A
761917 GACTAGGACG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAATAATAATATAT
Found at i:761906 original size:13 final size:13
Alignment explanation
Indices: 761882--761916 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
761872 TTATTATTTG
761882 ATAATA-ATAATA
1 ATAATATATAATA
761894 ATAATATATAATA
1 ATAATATATAATA
761907 ATAATATATA
1 ATAATATATA
761917 GACTAGGACG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 6 0.27
13 16 0.73
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAATATATAATA
Found at i:769084 original size:13 final size:13
Alignment explanation
Indices: 769068--769104 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
769058 TTAAGAAAAA
769068 ATATTAAATATAT
1 ATATTAAATATAT
*
769081 ATATTATATATAT
1 ATATTAAATATAT
769094 ATATTTAAATA
1 ATA-TTAAATA
769105 AGATATTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
ATATTAAATATAT
Found at i:769363 original size:151 final size:148
Alignment explanation
Indices: 769073--769349 Score: 364
Period size: 150 Copynumber: 1.8 Consensus size: 148
769063 AAAAAATATT
769073 AAATATATATATTATATATATATATTTAAATAAGATATTATTTACTTAGAAATATCAGAAAGAGA
1 AAATATATATATTATATATATATA-TTAAATAAGATATTATTTACTTAGAAATATCAGAAAGAGA
* *
769138 CTTCTAGGTGCTTAAGACAGCTCTTCTTCGATGTTAAAAGCAAATAAATATTAATAAAAACATTT
65 CTTCTAGGTGCTTAAGACAGCTCTTCTTCGATATTAAAAGAAAATAAATATT-ATAAAAACATTT
769203 CTATAAAAATAATTAAAATA
129 CTATAAAAATAATTAAAATA
* * * *
769223 AAATAATATATATTATATATATATA-TAAATAGGATATTTATTTATTTA-AGAGTATTAGAAA-A
1 AAAT-ATATATATTATATATATATATTAAATAAGATA-TTATTTACTTAGA-AATATCAGAAAGA
*
769285 GGACTTCTAGGTGCTTTAAGACAGCTCTTTTCTTCGATATTAATCAATAAAATAAATATTA-AAA
63 -GACTTCTAGGTGC-TTAAGACAGCTC--TTCTTCGATATTAA--AAGAAAATAAATATTATAAA
769349 A
122 A
769350 TGTTTCTTAA
Statistics
Matches: 111, Mismatches: 7, Indels: 15
0.83 0.05 0.11
Matches are distributed among these distances:
149 12 0.11
150 36 0.32
151 32 0.29
153 17 0.15
154 1 0.01
155 13 0.12
ACGTcount: A:0.46, C:0.08, G:0.09, T:0.37
Consensus pattern (148 bp):
AAATATATATATTATATATATATATTAAATAAGATATTATTTACTTAGAAATATCAGAAAGAGAC
TTCTAGGTGCTTAAGACAGCTCTTCTTCGATATTAAAAGAAAATAAATATTATAAAAACATTTCT
ATAAAAATAATTAAAATA
Found at i:769476 original size:11 final size:10
Alignment explanation
Indices: 769457--769481 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
769447 AAATTATTAT
769457 AAAATAAAAA
1 AAAATAAAAA
769467 AAAATAAAAA
1 AAAATAAAAA
769477 AAAAT
1 AAAAT
769482 TATTAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (10 bp):
AAAATAAAAA
Found at i:770942 original size:113 final size:111
Alignment explanation
Indices: 770736--771066 Score: 504
Period size: 113 Copynumber: 2.9 Consensus size: 111
770726 ATAGAGTCAT
* * *
770736 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTCTCTTCAGATAAGTTCTTCTCA
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCA
* *
770801 TTATGAACTTCTACCTGGCAATGCTGATCCATCGAGTGATGAATTGAA
66 TTATGAACTTCTA-CTGGCAATGTTGATCCATCAAGTGATGAATTG-A
*
770849 GCAAAATGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCCTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTT-CCTCTTCAGATGAGTTCTTCTC
* * *
770914 ATTATGAACTTTCT-CTGGAAATATTGATCCATCAAGTGATGGATTTGA
65 ATTATGAAC-TTCTACTGGCAATGTTGATCCATCAAGTGAT-GAATTGA
*
770962 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGATGAGTTCTT-TCA
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCA
771026 TTATGAACTTCTACCTGGCAATGTTGATCCATCAAGTGATG
66 TTATGAACTTCTA-CTGGCAATGTTGATCCATCAAGTGATG
771067 GATTTCATTA
Statistics
Matches: 200, Mismatches: 13, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
110 4 0.02
111 12 0.06
112 43 0.22
113 103 0.51
114 34 0.17
115 4 0.02
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.37
Consensus pattern (111 bp):
GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCA
TTATGAACTTCTACTGGCAATGTTGATCCATCAAGTGATGAATTGA
Found at i:771110 original size:47 final size:47
Alignment explanation
Indices: 771021--771118 Score: 153
Period size: 47 Copynumber: 2.1 Consensus size: 47
771011 AGATGAGTTC
* *
771021 TTTCATTATGAACTTCTACCTGGCAATGTTGATCCATCAAGTGATGGA
1 TTTCATTATGAACTTCTA-CTGGAAATATTGATCCATCAAGTGATGGA
771069 TTTCATTATGAACTTTCT-CTGGAAATATTGATCCATCAAGTGATGGA
1 TTTCATTATGAAC-TTCTACTGGAAATATTGATCCATCAAGTGATGGA
771116 TTT
1 TTT
771119 GAGCAAAAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
47 30 0.64
48 13 0.28
49 4 0.09
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (47 bp):
TTTCATTATGAACTTCTACTGGAAATATTGATCCATCAAGTGATGGA
Found at i:771120 original size:159 final size:160
Alignment explanation
Indices: 770912--771231 Score: 633
Period size: 159 Copynumber: 2.0 Consensus size: 160
770902 TGAGTTCTTC
770912 TCATTATGAACTTTCTCTGGAAATATTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACA
1 TCATTATGAACTTTCTCTGGAAATATTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACA
770977 AGCTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGATGAGTTCTT-TCATTATGAACTTCTACC
66 AGCTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTCTACC
771041 TGGCAATGTTGATCCATCAAGTGATGGATT
131 TGGCAATGTTGATCCATCAAGTGATGGATT
771071 TCATTATGAACTTTCTCTGGAAATATTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACA
1 TCATTATGAACTTTCTCTGGAAATATTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACA
771136 AGCTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTCTACC
66 AGCTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTCTACC
771201 TGGCAATGTTGATCCATCAAGTGATGGATT
131 TGGCAATGTTGATCCATCAAGTGATGGATT
771231 T
1 T
771232 GAGCAAAAGG
Statistics
Matches: 160, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
159 111 0.69
160 49 0.31
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (160 bp):
TCATTATGAACTTTCTCTGGAAATATTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACA
AGCTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTCTACC
TGGCAATGTTGATCCATCAAGTGATGGATT
Found at i:771322 original size:113 final size:112
Alignment explanation
Indices: 771071--771344 Score: 437
Period size: 113 Copynumber: 2.4 Consensus size: 112
771061 GTGATGGATT
* * *
771071 TCATTATGAACTTTCTCTGGAAATATTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACA
1 TCATTATGAACTCTATCTGGAAATGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACA
*
771136 AGCTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGATGAGTTCTTC
66 AGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTC
* *
771183 TCATTATGAACTTCTACCTGGCAATGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAAC
1 TCATTATGAAC-TCTATCTGGAAATGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAAC
771248 AAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
65 AAGCTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTC
*
771297 TCATTATGAACTCCT-TCTGGAAATGTTGATCCAT--TGTGATGGATTTGA
1 TCATTATGAACT-CTATCTGGAAATGTTGATCCATCAAGTGATGGATTTGA
771345 ATCTTTGCTA
Statistics
Matches: 150, Mismatches: 9, Indels: 7
0.90 0.05 0.04
Matches are distributed among these distances:
111 13 0.09
112 11 0.07
113 95 0.63
114 31 0.21
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (112 bp):
TCATTATGAACTCTATCTGGAAATGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACA
AGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTC
Found at i:773137 original size:75 final size:75
Alignment explanation
Indices: 773009--773173 Score: 251
Period size: 75 Copynumber: 2.2 Consensus size: 75
772999 ATGACGATGT
* * * *
773009 GGGCCTTCAGCATGCCCCAACATTGGCTAATACAAACGTTCAAAATGTGTCAACATTCTTGATTC
1 GGGCTTTCAGCATGCCCCAACATTAGCTAATACAAACATTCAAAATGTGTCAACATTCCTGA-TC
*
773074 -TGATTGAAAG
65 ATGAATGAAAG
*
773084 GGGCTTTCAGCATGCCCCAGCATTAGCTAATACAAACATTCAAAATGTGTCAACATTCCTGATCA
1 GGGCTTTCAGCATGCCCCAACATTAGCTAATACAAACATTCAAAATGTGTCAACATTCCTGATCA
*
773149 TGAATGAAAT
66 TGAATGAAAG
773159 GGGCTTTCAGCATGC
1 GGGCTTTCAGCATGC
773174 TCTATCATTT
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
74 2 0.02
75 80 0.98
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (75 bp):
GGGCTTTCAGCATGCCCCAACATTAGCTAATACAAACATTCAAAATGTGTCAACATTCCTGATCA
TGAATGAAAG
Found at i:775731 original size:32 final size:32
Alignment explanation
Indices: 775690--775751 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
775680 GAAGAAATGA
**
775690 TTGTTATGCTCATCTTGTAGAGATACTTCTAG
1 TTGTTATGCTCATCTCATAGAGATACTTCTAG
775722 TTGTTATGCTCATCTCATAGAGATACTTCT
1 TTGTTATGCTCATCTCATAGAGATACTTCT
775752 TGTGTCCGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.44
Consensus pattern (32 bp):
TTGTTATGCTCATCTCATAGAGATACTTCTAG
Found at i:781696 original size:2 final size:2
Alignment explanation
Indices: 781683--781792 Score: 199
Period size: 2 Copynumber: 56.5 Consensus size: 2
781673 TTTTAAGAAA
781683 AT AT AT -T A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
781723 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
781765 AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
781793 AATAAGATAT
Statistics
Matches: 105, Mismatches: 0, Indels: 6
0.95 0.00 0.05
Matches are distributed among these distances:
1 3 0.03
2 102 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:781930 original size:2 final size:2
Alignment explanation
Indices: 781923--781955 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
781913 AAATAAAATA
781923 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
781956 ATAGGATATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:795731 original size:64 final size:64
Alignment explanation
Indices: 795624--795807 Score: 178
Period size: 64 Copynumber: 2.9 Consensus size: 64
795614 CTTAGTACAC
* * *** *
795624 CGATGCATGAAGTGCATTCGATGTTTGAA--AAAT-AGCATGGTGCATCGATGCATGGCTTGTTC
1 CGATGCATGAAATGCATTCGATGTTTCAATTAAATCAG--T-GTGCATCGATGCATGGAGAGTGC
795686 AT
63 AT
* * *
795688 CGATGCATCAAATGCATTCGATGTTTTAATTAAATCAGTGTGCATCGATGCATGAAGAGTGCAT
1 CGATGCATGAAATGCATTCGATGTTTCAATTAAATCAGTGTGCATCGATGCATGGAGAGTGCAT
* * * *
795752 C-AGTGCATGAAATGAATTCGATGTTTCAATTTATTCATTGATGCATCGATGCATGG
1 CGA-TGCATGAAATGCATTCGATGTTTCAATTAAATCAGTG-TGCATCGATGCATGG
795808 TATTGATGCA
Statistics
Matches: 100, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
63 1 0.01
64 78 0.78
65 15 0.15
66 4 0.04
67 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (64 bp):
CGATGCATGAAATGCATTCGATGTTTCAATTAAATCAGTGTGCATCGATGCATGGAGAGTGCAT
Found at i:795812 original size:21 final size:21
Alignment explanation
Indices: 795788--795827 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
795778 CAATTTATTC
795788 ATTGATGCATC-GATGCATGGT
1 ATTGATGCATCAG-TGCATGGT
795809 ATTGATGCATCAGTGCATG
1 ATTGATGCATCAGTGCATG
795828 CCTTTGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.33
Consensus pattern (21 bp):
ATTGATGCATCAGTGCATGGT
Found at i:799371 original size:2 final size:2
Alignment explanation
Indices: 799364--799415 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
799354 AAATAATTTA
799364 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
799406 AT AT A- AT AT A
1 AT AT AT AT AT A
799416 ATAACATGAA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 48 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:800788 original size:105 final size:104
Alignment explanation
Indices: 800601--800914 Score: 465
Period size: 105 Copynumber: 3.0 Consensus size: 104
800591 GCATTGTTCA
* * ** * * *
800601 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGAATCT-GA--ATGAAATT-TTGTTAACAAGC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGGATTAGGAAGTTGTTGTTGACAAGC
* *
800662 AGCGGTCCCTTCATCATGAAGTTGAACTTGCGTTGTCTG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
800701 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGCGATTAGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG-GATTAGGAAGTTGTTGTTGACAAG
800766 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
800806 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG-GATTAGGAAGTTGTTGTTGACAAG
*
800871 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
800911 GAGT
1 GAGT
800915 GCCACGATAT
Statistics
Matches: 194, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
100 35 0.18
102 2 0.01
104 6 0.03
105 151 0.78
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (104 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGGATTAGGAAGTTGTTGTTGACAAGC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:801668 original size:36 final size:35
Alignment explanation
Indices: 801619--801859 Score: 176
Period size: 36 Copynumber: 6.9 Consensus size: 35
801609 GATTTTTTGT
* *
801619 TTCAAGAGTAACTGTCTCAAGATAGACGAAAATTGA
1 TTCAAGAGAAACTGTCTCAAGAGAGAC-AAAATTGA
801655 TTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT-A
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTGA
* * * * *
801690 GTTCCAAAAGAAATTGTCTCAAGGGAGACGAAATTTGT
1 -TT-CAAGAGAAACTGTCTCAAGAGAGAC-AAAATTGA
* * ** *
801728 TTCAA-AGAAAACATAT-TC---A-A-A-TATTTTGT
1 TTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAATTGA
* * * *
801757 TTCAAGGGAAACTGTCTCAAGATAGACGAAATTTGT
1 TTCAAGAGAAACTGTCTCAAGAGAGAC-AAAATTGA
*
801793 TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTA
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTGA
*
801828 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 -TTCAAGAGAAACTGTCTCAAGAGAGACAAAA
801860 CTCTTCTAGT
Statistics
Matches: 166, Mismatches: 22, Indels: 34
0.75 0.10 0.15
Matches are distributed among these distances:
28 2 0.01
29 17 0.10
30 1 0.01
31 1 0.01
32 2 0.01
33 1 0.01
34 1 0.01
35 12 0.07
36 98 0.59
37 28 0.17
38 3 0.02
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.25
Consensus pattern (35 bp):
TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTGA
Found at i:801881 original size:35 final size:36
Alignment explanation
Indices: 801757--801893 Score: 127
Period size: 36 Copynumber: 3.8 Consensus size: 36
801747 AATATTTTGT
* * * * **
801757 TTCAAGGGAAACTGTCTCAAGATAGACGAAATTTGT
1 TTCAAGGAAAACTGTCTCAAGAGAGACAAAATCTAC
* *
801793 TTCAA-GAGAAACTGTCTCAAGAGAGACAAAATTTAT
1 TTCAAGGA-AAACTGTCTCAAGAGAGACAAAATCTAC
*
801829 TTCAAGGGAAACTGTCTCAAGAGAGACAAAA-CT-C
1 TTCAAGGAAAACTGTCTCAAGAGAGACAAAATCTAC
* * *
801863 TTCTAGTGAAAACGGTCTCAAGCGAGACAAA
1 TTCAAG-GAAAACTGTCTCAAGAGAGACAAA
801894 TCTTGTTTTA
Statistics
Matches: 87, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
34 5 0.06
35 23 0.26
36 58 0.67
37 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (36 bp):
TTCAAGGAAAACTGTCTCAAGAGAGACAAAATCTAC
Found at i:802367 original size:18 final size:18
Alignment explanation
Indices: 802340--802375 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
802330 TGTTGAATCC
* *
802340 CCAAAGATGCCTCAATAT
1 CCAAAAATGCCCCAATAT
802358 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
802376 TTGATGTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.31, G:0.08, T:0.19
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:802786 original size:22 final size:22
Alignment explanation
Indices: 802761--802811 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
802751 TTGTGTTTGG
*
802761 TCAAATGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
802783 TCAAAGGTTTGGTATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
802805 TCAAAGG
1 TCAAAGG
802812 ATTGATGGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.37
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:803462 original size:23 final size:24
Alignment explanation
Indices: 803435--803488 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
803425 TTTGCATGTG
803435 TTTTTTG-TCCCTTTTT-CTTTTT
1 TTTTTTGTTCCCTTTTTGCTTTTT
**
803457 TCTTTTTGTTCTTTTTTTGCTTTTT
1 T-TTTTTGTTCCCTTTTTGCTTTTT
803482 TTTTTTG
1 TTTTTTG
803489 CTTTTTTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 1 0.04
23 6 0.22
24 13 0.48
25 7 0.26
ACGTcount: A:0.00, C:0.13, G:0.07, T:0.80
Consensus pattern (24 bp):
TTTTTTGTTCCCTTTTTGCTTTTT
Found at i:803463 original size:13 final size:12
Alignment explanation
Indices: 803446--803497 Score: 59
Period size: 13 Copynumber: 4.2 Consensus size: 12
803436 TTTTTGTCCC
803446 TTTTTCTTTTTT
1 TTTTTCTTTTTT
* *
803458 CTTTTTGTTCTTT
1 -TTTTTCTTTTTT
*
803471 TTTTGCTTTTTT
1 TTTTTCTTTTTT
803483 TTTTTGCTTTTTT
1 TTTTT-CTTTTTT
803496 TT
1 TT
803498 CTTTTTGCCC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
12 13 0.41
13 19 0.59
ACGTcount: A:0.00, C:0.10, G:0.06, T:0.85
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:803468 original size:9 final size:8
Alignment explanation
Indices: 803446--803503 Score: 59
Period size: 7 Copynumber: 7.4 Consensus size: 8
803436 TTTTTGTCCC
803446 TTTTTC-T
1 TTTTTCTT
803453 TTTTTCTT
1 TTTTTCTT
803461 TTTGTTCTT
1 TTT-TTCTT
803470 TTTTTGCTT
1 TTTTT-CTT
803479 TTTTT-TT
1 TTTTTCTT
**
803486 TTGCT-TT
1 TTTTTCTT
803493 TTTTTCTT
1 TTTTTCTT
803501 TTT
1 TTT
803504 GCCCTTTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
7 16 0.37
8 11 0.26
9 16 0.37
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.84
Consensus pattern (8 bp):
TTTTTCTT
Found at i:803481 original size:10 final size:9
Alignment explanation
Indices: 803452--803503 Score: 50
Period size: 9 Copynumber: 5.3 Consensus size: 9
803442 TCCCTTTTTC
803452 TTTTTTCTT
1 TTTTTTCTT
*
803461 TTTGTTCTTT
1 TTTTTTC-TT
*
803471 TTTTGCTTTTT
1 TTTT--TTCTT
803482 TTTTTTGCTT
1 TTTTTT-CTT
803492 TTTTTTCTT
1 TTTTTTCTT
803501 TTT
1 TTT
803504 GCCCTTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
9 14 0.40
10 13 0.37
11 6 0.17
12 2 0.06
ACGTcount: A:0.00, C:0.10, G:0.06, T:0.85
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:803511 original size:31 final size:31
Alignment explanation
Indices: 803436--803512 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
803426 TTGCATGTGT
803436 TTTTTGTCCCTTTTTCTTTTTTCTTTTTGTTC
1 TTTTTG-CCCTTTTTCTTTTTTCTTTTTGTTC
*** *
803468 TTTTTTTGCTTTTT-TTTTTTGCTTTTTTTTC
1 TTTTTGCCCTTTTTCTTTTTT-CTTTTTGTTC
803499 TTTTTGCCCTTTTT
1 TTTTTGCCCTTTTT
803513 ATTCTGATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
30 6 0.16
31 26 0.70
32 5 0.14
ACGTcount: A:0.00, C:0.16, G:0.06, T:0.78
Consensus pattern (31 bp):
TTTTTGCCCTTTTTCTTTTTTCTTTTTGTTC
Found at i:803512 original size:18 final size:16
Alignment explanation
Indices: 803446--803505 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
803436 TTTTTGTCCC
*
803446 TTTTTCTTTTTTCTTT
1 TTTTTCTTTTTGCTTT
*
803462 TTGTTCTTTTT--TTGCT
1 TTTTTCTTTTTGCTT--T
803478 TTTTT-TTTTTGCTTT
1 TTTTTCTTTTTGCTTT
803493 TTTTTCTTTTTGC
1 TTTTTCTTTTTGC
803506 CCTTTTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 2 0.05
15 11 0.30
16 22 0.59
17 2 0.05
ACGTcount: A:0.00, C:0.12, G:0.07, T:0.82
Consensus pattern (16 bp):
TTTTTCTTTTTGCTTT
Found at i:807807 original size:2 final size:2
Alignment explanation
Indices: 807800--807835 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
807790 AAATAATTTA
807800 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
807836 GCATATAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:807861 original size:18 final size:17
Alignment explanation
Indices: 807840--807882 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
807830 ATATATGCAT
807840 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
807858 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
807875 ATAA-AATA
1 ATAATAATA
807883 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:812087 original size:29 final size:30
Alignment explanation
Indices: 812017--812076 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
812007 CAATTTAAGG
*
812017 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTAAATTTA
812048 CAAAATGTTTTTGGACTT-AATTAAATTTA
1 CAAAATGTTTTTGGACTTGAATTAAATTTA
812077 TTCAAAGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 10 0.36
30 12 0.43
31 6 0.21
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTAAATTTA
Found at i:814728 original size:20 final size:21
Alignment explanation
Indices: 814699--814754 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
814689 TTTGCGCTTC
*
814699 ATGCACCGATGCAT-TT-AACA
1 ATGCATCGATGCATCTTGAA-A
*
814719 ATGCATCGATGCATCCTTGAAT
1 ATGCATCGATGCAT-CTTGAAA
814741 ATGCATCGATGCAT
1 ATGCATCGATGCAT
814755 AAGACCATGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.42
22 16 0.52
23 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGCATCGATGCATCTTGAAA
Found at i:816334 original size:21 final size:21
Alignment explanation
Indices: 816292--816335 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
816282 AACCCGGGAG
*
816292 CTAGTTCTTCACGAGCTGCTC
1 CTAGTTCTTCACGAGCTCCTC
* *
816313 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCACGAGCTCCTC
816334 CT
1 CT
816336 CCTCCTCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.36, G:0.16, T:0.39
Consensus pattern (21 bp):
CTAGTTCTTCACGAGCTCCTC
Found at i:817399 original size:19 final size:19
Alignment explanation
Indices: 817375--817413 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
817365 TCGAATGCAT
817375 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
817394 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
817413 T
1 T
817414 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:817467 original size:19 final size:19
Alignment explanation
Indices: 817443--817493 Score: 102
Period size: 19 Copynumber: 2.7 Consensus size: 19
817433 AATGCATTTG
817443 ATGCATCGATGCACAAGCC
1 ATGCATCGATGCACAAGCC
817462 ATGCATCGATGCACAAGCC
1 ATGCATCGATGCACAAGCC
817481 ATGCATCGATGCA
1 ATGCATCGATGCA
817494 TCAGGCTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.31, C:0.29, G:0.22, T:0.18
Consensus pattern (19 bp):
ATGCATCGATGCACAAGCC
Found at i:817530 original size:83 final size:84
Alignment explanation
Indices: 817376--817540 Score: 226
Period size: 83 Copynumber: 2.0 Consensus size: 84
817366 CGAATGCATT
*** * *
817376 CCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATTGAATGCATT
1 CCATGCACCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAAAACATCGAATGCATT
*
817441 TGATGCATCGATGCACAAG
66 TCATGCATCGATGCACAAG
* **
817460 CCATGCATCGATGCACAAGCCATGCATCGATGCA-TCAGGCTATTTTTC-AAACATCGAATGCAT
1 CCATGCACCGATGCACAAGCCATGCATCGATGCACTCAGAATA-TTTTCAAAACATCGAATGCAT
817523 TTCATGCATCGATGCACA
65 TTCATGCATCGATGCACA
817541 CTTGGTGCAC
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
83 36 0.51
84 35 0.49
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (84 bp):
CCATGCACCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAAAACATCGAATGCATT
TCATGCATCGATGCACAAG
Found at i:820838 original size:34 final size:30
Alignment explanation
Indices: 820800--820868 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 30
820790 TTGATATAAC
820800 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTG
820834 AATTT-ACAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTG
820863 AATTTA
1 AATTTA
820869 TTCAAAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
29 10 0.29
30 12 0.35
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTG
Found at i:820879 original size:29 final size:30
Alignment explanation
Indices: 820809--820868 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
820799 CAATTTAAGG
820809 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
820840 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
820869 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:820974 original size:21 final size:21
Alignment explanation
Indices: 820948--821004 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
820938 AGGGTGTCAA
820948 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
820969 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
*
820990 AATGCATCCATGCAT
1 AGTGCATCCATGCAT
821005 TTGCACTAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.25
Consensus pattern (21 bp):
AGTGCATCCATGCATCCCTGC
Found at i:820994 original size:13 final size:13
Alignment explanation
Indices: 820978--821045 Score: 50
Period size: 13 Copynumber: 5.0 Consensus size: 13
820968 CAGTGCATCC
*
820978 ATGCATCCCTGCA
1 ATGCATCCATGCA
820991 ATGCATCCATGCA
1 ATGCATCCATGCA
* *
821004 TTTGCA-CTAATGCA
1 -ATGCATC-CATGCA
821018 TCGATGCAT-CATGCA
1 ---ATGCATCCATGCA
821033 ATGCATCCATGCA
1 ATGCATCCATGCA
821046 TCCAAACATC
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
12 6 0.14
13 19 0.44
14 9 0.21
15 5 0.12
16 4 0.09
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.26
Consensus pattern (13 bp):
ATGCATCCATGCA
Found at i:823025 original size:126 final size:127
Alignment explanation
Indices: 822885--823137 Score: 490
Period size: 127 Copynumber: 2.0 Consensus size: 127
822875 TAATAAAACA
*
822885 AAAAAAAAGTATTTTAGGCACTTAAAATAATAAAAGAGCATAATTTAGTCA-TTTTTTTCAACAA
1 AAAAAAAAGTATTTTAGGCACTTAAAATAATAAAAGAGCATAATTTAGTCAGTTTTTATCAACAA
822949 CAGTTACCTTGGTATATTAAAAAGTAGTGATAAAATCTTCCTGTATTTTGGAAACTGATAAC
66 CAGTTACCTTGGTATATTAAAAAGTAGTGATAAAATCTTCCTGTATTTTGGAAACTGATAAC
823011 AAAAAAAAGTATTTTAGGCACTTAAAATAATAAAAGAGCATAATTTAGTCAGTTTTTATCAACAA
1 AAAAAAAAGTATTTTAGGCACTTAAAATAATAAAAGAGCATAATTTAGTCAGTTTTTATCAACAA
823076 CAGTTACCTTGGTATATTAAAAAGTAGTGATAAAATCTTCCTGTATTTTGGAAACTGATAAC
66 CAGTTACCTTGGTATATTAAAAAGTAGTGATAAAATCTTCCTGTATTTTGGAAACTGATAAC
823138 CTGTTGGTCG
Statistics
Matches: 125, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
126 51 0.41
127 74 0.59
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (127 bp):
AAAAAAAAGTATTTTAGGCACTTAAAATAATAAAAGAGCATAATTTAGTCAGTTTTTATCAACAA
CAGTTACCTTGGTATATTAAAAAGTAGTGATAAAATCTTCCTGTATTTTGGAAACTGATAAC
Found at i:825661 original size:16 final size:15
Alignment explanation
Indices: 825634--825667 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
825624 AAACACAATC
825634 AAAAGAAAGATACAG
1 AAAAGAAAGATACAG
*
825649 AAAAGATAAGATAGAG
1 AAAAGA-AAGATACAG
825665 AAA
1 AAA
825668 GTAGAAGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.68, C:0.03, G:0.21, T:0.09
Consensus pattern (15 bp):
AAAAGAAAGATACAG
Found at i:832947 original size:22 final size:23
Alignment explanation
Indices: 832921--832967 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
832911 AATGTTACTT
* *
832921 AAAATGTT-ATTTTTTTATATAA
1 AAAATATTAATTTTGTTATATAA
*
832943 AAAATATTAATTTTGTTATTTAA
1 AAAATATTAATTTTGTTATATAA
832966 AA
1 AA
832968 TGAATATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (23 bp):
AAAATATTAATTTTGTTATATAA
Found at i:832979 original size:23 final size:23
Alignment explanation
Indices: 832913--832979 Score: 54
Period size: 23 Copynumber: 3.0 Consensus size: 23
832903 TATGATAGAA
* *
832913 TGTTACTTAAAATG-TTA-TTTT
1 TGTTATTTAAAATGAATATTTTT
*
832934 T-TTATATAAAA--AATATTAATTT
1 TGTTATTTAAAATGAATATT--TTT
832956 TGTTATTTAAAATGAATATTTTT
1 TGTTATTTAAAATGAATATTTTT
832979 T
1 T
832980 ATATTAATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
19 2 0.06
20 9 0.26
21 1 0.03
22 4 0.11
23 13 0.37
25 6 0.17
ACGTcount: A:0.37, C:0.01, G:0.06, T:0.55
Consensus pattern (23 bp):
TGTTATTTAAAATGAATATTTTT
Found at i:837939 original size:18 final size:18
Alignment explanation
Indices: 837896--837939 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
837886 AATAATATTT
837896 TAATTACAAATATAAAAAG
1 TAATTA-AAATATAAAAAG
*
837915 TATTTAAAATATATAAAA-
1 TAATTAAAATATA-AAAAG
837933 TAATTAA
1 TAATTAA
837940 GAGGATGATG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (18 bp):
TAATTAAAATATAAAAAG
Found at i:838916 original size:15 final size:17
Alignment explanation
Indices: 838898--838931 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
838888 TCTGGGATGA
838898 CTGCCCC-C-ATCCACC
1 CTGCCCCTCAATCCACC
838913 CTGCCCCTCAATCCACC
1 CTGCCCCTCAATCCACC
838930 CT
1 CT
838932 TGATCTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 1 0.06
17 9 0.53
ACGTcount: A:0.15, C:0.62, G:0.06, T:0.18
Consensus pattern (17 bp):
CTGCCCCTCAATCCACC
Found at i:840601 original size:20 final size:20
Alignment explanation
Indices: 840567--840623 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
840557 GTTTATTTTA
* *
840567 TAATTATATATTATTTAAAT
1 TAATTATAAAATATTTAAAT
* **
840587 TAATTATAAACTATTT-TTT
1 TAATTATAAAATATTTAAAT
840606 TAATTATAAAATATTTAA
1 TAATTATAAAATATTTAA
840624 TTTTTATATA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
TAATTATAAAATATTTAAAT
Found at i:847201 original size:19 final size:19
Alignment explanation
Indices: 847177--847224 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
847167 ATGGGGTTCT
847177 CTCATTTTCTCTTATC-TTC
1 CTCATTTTCTCTT-TCTTTC
847196 CTCA-TTTCTTCTTTCTTTC
1 CTCATTTTC-TCTTTCTTTC
*
847215 TTCATTTTCT
1 CTCATTTTCT
847225 TCCTGCATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 6 0.24
19 15 0.60
20 4 0.16
ACGTcount: A:0.08, C:0.29, G:0.00, T:0.62
Consensus pattern (19 bp):
CTCATTTTCTCTTTCTTTC
Found at i:847778 original size:20 final size:19
Alignment explanation
Indices: 847748--847825 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 19
847738 TTTTGTTCAG
*
847748 CAAAGGATCGATCCCTTTT
1 CAAAAGATCGATCCCTTTT
* ***
847767 TAAAATGATCGATCCCTCGG
1 CAAAA-GATCGATCCCTTTT
*
847787 GAGAAAGAATCGATCCCTTTT
1 CA-AAAG-ATCGATCCCTTTT
847808 CAAAAGGATCGATCCCTT
1 CAAAA-GATCGATCCCTT
847826 CTTTGTTTTG
Statistics
Matches: 45, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
19 3 0.07
20 27 0.60
21 15 0.33
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (19 bp):
CAAAAGATCGATCCCTTTT
Found at i:848889 original size:44 final size:45
Alignment explanation
Indices: 848841--848942 Score: 134
Period size: 44 Copynumber: 2.3 Consensus size: 45
848831 GCAAGGTGTT
* * *
848841 GATGCTGTGTGACTCAGACTTAGCCTAAGGTA-TTGGGAGGTGCC
1 GATGCTGTGTGACTCAGACCTAGCCTAAGATACTTGGGAGATGCC
* * * *
848885 GATGCTATGTGACTCGGACCTCGCCTAAGATACTTGGGAGATGCT
1 GATGCTGTGTGACTCAGACCTAGCCTAAGATACTTGGGAGATGCC
848930 GATGCTGTGTGAC
1 GATGCTGTGTGAC
848943 CCATGTCTAC
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 27 0.55
45 22 0.45
ACGTcount: A:0.21, C:0.20, G:0.32, T:0.27
Consensus pattern (45 bp):
GATGCTGTGTGACTCAGACCTAGCCTAAGATACTTGGGAGATGCC
Found at i:851749 original size:16 final size:16
Alignment explanation
Indices: 851711--851756 Score: 67
Period size: 15 Copynumber: 2.9 Consensus size: 16
851701 TGAGCATTGT
*
851711 ATATGTGAGTCACAAG
1 ATATATGAGTCACAAG
851727 A-ATATGAGTCACAAG
1 ATATATGAGTCACAAG
*
851742 ATATATGAGTAACAA
1 ATATATGAGTCACAA
851757 TAAGGTACTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 14 0.52
16 13 0.48
ACGTcount: A:0.46, C:0.11, G:0.20, T:0.24
Consensus pattern (16 bp):
ATATATGAGTCACAAG
Found at i:858510 original size:3 final size:3
Alignment explanation
Indices: 858502--858538 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
858492 TCAGTGAGTG
858502 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
858539 AACCCAATTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:866973 original size:11 final size:11
Alignment explanation
Indices: 866957--866987 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
866947 ATGGAAGATG
866957 GTAAATAAACA
1 GTAAATAAACA
866968 GTAAATAAACA
1 GTAAATAAACA
*
866979 GCAAATAAA
1 GTAAATAAA
866988 ATGAAAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.65, C:0.10, G:0.10, T:0.16
Consensus pattern (11 bp):
GTAAATAAACA
Found at i:867505 original size:23 final size:23
Alignment explanation
Indices: 867479--867527 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
867469 ATAAAGAACC
*
867479 AAAATAAACT-TAAATATACCATT
1 AAAATAAACTCTAAACAT-CCATT
*
867502 AAAATAAAGTCTAAACATCCATT
1 AAAATAAACTCTAAACATCCATT
867525 AAA
1 AAA
867528 CCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.57, C:0.14, G:0.02, T:0.27
Consensus pattern (23 bp):
AAAATAAACTCTAAACATCCATT
Found at i:870677 original size:20 final size:21
Alignment explanation
Indices: 870652--870714 Score: 67
Period size: 20 Copynumber: 3.0 Consensus size: 21
870642 AATATGAGAG
870652 ATAAAAAGTAAAAGTTAA-AA
1 ATAAAAAGTAAAAGTTAAGAA
*
870672 ATAAAATAG-AAAAGTTAAGGA
1 ATAAAA-AGTAAAAGTTAAGAA
*
870693 AGAAAAAGTTAAAAGTTTAAGA
1 ATAAAAAG-TAAAAG-TTAAGA
870715 GGGAAAAGGG
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
20 17 0.49
21 8 0.23
22 5 0.14
23 5 0.14
ACGTcount: A:0.63, C:0.00, G:0.16, T:0.21
Consensus pattern (21 bp):
ATAAAAAGTAAAAGTTAAGAA
Found at i:878969 original size:28 final size:28
Alignment explanation
Indices: 878937--878997 Score: 122
Period size: 28 Copynumber: 2.2 Consensus size: 28
878927 TAATTAGGTC
878937 GTTGTAATTAATAGCTAAATACAGAGAT
1 GTTGTAATTAATAGCTAAATACAGAGAT
878965 GTTGTAATTAATAGCTAAATACAGAGAT
1 GTTGTAATTAATAGCTAAATACAGAGAT
878993 GTTGT
1 GTTGT
878998 CTAGCTATTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.34
Consensus pattern (28 bp):
GTTGTAATTAATAGCTAAATACAGAGAT
Found at i:880221 original size:31 final size:31
Alignment explanation
Indices: 880183--880242 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
880173 AGAAGAAATA
* *
880183 AATGAAAAATATTTTAATAGAAAACTTTAAT
1 AATGAAAAACATCTTAATAGAAAACTTTAAT
*
880214 AATGAAAAACATCTTAATAGAAAATTTTA
1 AATGAAAAACATCTTAATAGAAAACTTTA
880243 TATAGATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (31 bp):
AATGAAAAACATCTTAATAGAAAACTTTAAT
Found at i:880623 original size:19 final size:21
Alignment explanation
Indices: 880599--880638 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
880589 CATGCCAGTC
880599 AAACAATAAAA-AATT-ATTT
1 AAACAATAAAAGAATTGATTT
880618 AAACAATAAAAGAATTGATTT
1 AAACAATAAAAGAATTGATTT
880639 TGTTGGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 11 0.58
20 4 0.21
21 4 0.21
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (21 bp):
AAACAATAAAAGAATTGATTT
Found at i:890727 original size:2 final size:2
Alignment explanation
Indices: 890720--890786 Score: 116
Period size: 2 Copynumber: 33.5 Consensus size: 2
890710 TCAATCTACA
890720 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
890762 AT GT AT GT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
890787 ATTTACGAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:890966 original size:13 final size:13
Alignment explanation
Indices: 890943--890994 Score: 68
Period size: 13 Copynumber: 4.0 Consensus size: 13
890933 AATGACATTC
*
890943 AATGCGCGTCATA
1 AATGCGTGTCATA
*
890956 AATGTGTGTCATA
1 AATGCGTGTCATA
890969 AATGCGTGTCATA
1 AATGCGTGTCATA
* *
890982 AATACTTGTCATA
1 AATGCGTGTCATA
890995 GATTTATGAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (13 bp):
AATGCGTGTCATA
Found at i:892163 original size:60 final size:60
Alignment explanation
Indices: 892025--892181 Score: 192
Period size: 60 Copynumber: 2.6 Consensus size: 60
892015 CTTATTTTAG
* * * *
892025 ATTAGTCCTTAAACTTTTAAACATTCCAATTTTATCCTCGAACTATAACTCTCATTCTAA
1 ATTAGTCCTTAAACTTTTGAATATTCTAATTTTATCCTAGAACTATAACTCTCATTCTAA
*
892085 ATTACTCCTTAAACTTTTGAATATTCTAATTTTATCCATAG-ACTATGAA-TCTCATTCTAA
1 ATTAGTCCTTAAACTTTTGAATATTCTAATTTTATCC-TAGAACTAT-AACTCTCATTCTAA
* * * * *
892145 ATTGGTCCCTAAACTTTTGAATCTTATAATTTCATCC
1 ATTAGTCCTTAAACTTTTGAATATTCTAATTTTATCC
892182 CCAAATTCAT
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
60 80 0.95
61 4 0.05
ACGTcount: A:0.32, C:0.21, G:0.05, T:0.42
Consensus pattern (60 bp):
ATTAGTCCTTAAACTTTTGAATATTCTAATTTTATCCTAGAACTATAACTCTCATTCTAA
Found at i:892420 original size:19 final size:19
Alignment explanation
Indices: 892396--892437 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
892386 TGAAATGCTC
*
892396 AAAAGTTT-GAGGATAATTT
1 AAAAGTTTAG-GGACAATTT
892415 AAAAGTTTAGGGACAATTT
1 AAAAGTTTAGGGACAATTT
892434 AAAA
1 AAAA
892438 TAAGTCATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 20 0.95
20 1 0.05
ACGTcount: A:0.48, C:0.02, G:0.19, T:0.31
Consensus pattern (19 bp):
AAAAGTTTAGGGACAATTT
Found at i:896971 original size:38 final size:38
Alignment explanation
Indices: 896895--897182 Score: 349
Period size: 38 Copynumber: 7.5 Consensus size: 38
896885 GTTTTTGAAA
* *
896895 ATATATAATATATAG-TTTTGAAAATATTTTG-AAGAT
1 ATATATAATATATAGTTTTTGAAAACATTTTGAAAAAT
896931 ATATATAATATATAGTTTTTGAAAACATTTTGAAAAAT
1 ATATATAATATATAGTTTTTGAAAACATTTTGAAAAAT
896969 ATATATAATATATAGTTTTTGAAAACATTTTG-AAAAT
1 ATATATAATATATAGTTTTTGAAAACATTTTGAAAAAT
*
897006 ATATATAATATATAGTTTTTTAAAACATTTTTG-AAAAT
1 ATATATAATATATAGTTTTTGAAAACA-TTTTGAAAAAT
*
897044 ATATATAATATATAGTTTTTTAAAACATTTTTGAAAATATAT
1 ATATATAATATATAGTTTTTGAAAACA-TTTTG-AAA-A-AT
* *
897086 ATATATATATATAATATATAGTTTTGAAAATATTTT-ACAAAA-
1 ATATATA-ATAT-ATA-GT--TTTTGAAAACATTTTGA-AAAAT
* *
897128 ATATATAATATATAG-TTTT-AAAACGTTTTTAAAAAT
1 ATATATAATATATAGTTTTTGAAAACATTTTGAAAAAT
897164 ATATATAATATATAGTTTT
1 ATATATAATATATAGTTTT
897183 AAAAAATGTT
Statistics
Matches: 227, Mismatches: 9, Indels: 31
0.85 0.03 0.12
Matches are distributed among these distances:
35 12 0.05
36 35 0.15
37 49 0.22
38 79 0.35
40 5 0.02
41 5 0.02
42 16 0.07
43 5 0.02
44 5 0.02
45 3 0.01
46 4 0.02
47 9 0.04
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.45
Consensus pattern (38 bp):
ATATATAATATATAGTTTTTGAAAACATTTTGAAAAAT
Found at i:897101 original size:48 final size:45
Alignment explanation
Indices: 897041--897141 Score: 139
Period size: 47 Copynumber: 2.2 Consensus size: 45
897031 CATTTTTGAA
* **
897041 AATATATATAATATATAGTTTTTTAAAACATTTTTGAAAATATATAT
1 AATATATATAATATATAG-TTTTGAAAACATTTTACAAAA-ATATAT
*
897088 ATATATATATAATATATAGTTTTGAAAATATTTTACAAAAATATAT
1 A-ATATATATAATATATAGTTTTGAAAACATTTTACAAAAATATAT
897134 AATATATA
1 AATATATA
897142 GTTTTAAAAC
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
45 7 0.14
46 7 0.14
47 18 0.37
48 17 0.35
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.45
Consensus pattern (45 bp):
AATATATATAATATATAGTTTTGAAAACATTTTACAAAAATATAT
Found at i:897139 original size:34 final size:35
Alignment explanation
Indices: 897090--897186 Score: 144
Period size: 36 Copynumber: 2.7 Consensus size: 35
897080 ATATATATAT
897090 ATATATATAATATATAGTTTTGAAAA-TATTTTACAAA
1 ATATATATAATATATAGTTTT-AAAACT-TTTTA-AAA
897127 A-ATATATAATATATAGTTTTAAAACGTTTTTAAAA
1 ATATATATAATATATAGTTTTAAAAC-TTTTTAAAA
897162 ATATATATAATATATAGTTTTAAAA
1 ATATATATAATATATAGTTTTAAAA
897187 AATGTTTTTT
Statistics
Matches: 57, Mismatches: 0, Indels: 7
0.89 0.00 0.11
Matches are distributed among these distances:
35 8 0.14
36 47 0.82
37 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.43
Consensus pattern (35 bp):
ATATATATAATATATAGTTTTAAAACTTTTTAAAA
Found at i:897183 original size:36 final size:37
Alignment explanation
Indices: 897090--897249 Score: 142
Period size: 36 Copynumber: 4.5 Consensus size: 37
897080 ATATATATAT
*
897090 ATATATATAATATATAGTTTTGAAAA--TATTTTACAAA
1 ATATATATAATATATAGTTTTAAAAACGT-TTTTA-AAA
897127 A-ATATATAATATATAGTTTT-AAAACGTTTTTAAAA
1 ATATATATAATATATAGTTTTAAAAACGTTTTTAAAA
* *
897162 ATATATATAATATATAGTTTTAAAAAATGTTTTT---T
1 ATATATATAATATATAGTTTT-AAAAACGTTTTTAAAA
* * ** *
897197 A-ATATATAATATTTAGGTTT-GGAACGTTTCTTATAA
1 ATATATATAATATATAGTTTTAAAAACGTTT-TTAAAA
897233 ATATATATAATAT-TAGT
1 ATATATATAATATATAGT
897250 ATACTTATTT
Statistics
Matches: 104, Mismatches: 9, Indels: 21
0.78 0.07 0.16
Matches are distributed among these distances:
32 6 0.06
33 2 0.02
34 17 0.16
35 9 0.09
36 47 0.45
37 13 0.12
38 10 0.10
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (37 bp):
ATATATATAATATATAGTTTTAAAAACGTTTTTAAAA
Found at i:897270 original size:13 final size:13
Alignment explanation
Indices: 897254--897324 Score: 53
Period size: 14 Copynumber: 5.5 Consensus size: 13
897244 ATTAGTATAC
897254 TTATTTTATTTTT
1 TTATTTTATTTTT
*
897267 TTA-TTCA--TTT
1 TTATTTTATTTTT
*
897277 TTATCTTATTTTT
1 TTATTTTATTTTT
897290 ATT-TCTTTATTTTT
1 -TTAT-TTTATTTTT
897304 TCTATTTCTA-TTTT
1 T-TATTT-TATTTTT
897318 TTATTTT
1 TTATTTT
897325 CTATTTATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 17
0.69 0.06 0.25
Matches are distributed among these distances:
10 6 0.13
11 2 0.04
12 4 0.09
13 13 0.28
14 18 0.39
15 3 0.07
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.77
Consensus pattern (13 bp):
TTATTTTATTTTT
Found at i:897315 original size:29 final size:29
Alignment explanation
Indices: 897257--897323 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
897247 AGTATACTTA
*
897257 TTTTATTTTTTTATTCATTTTTATCTTA-T
1 TTTTATTTCTTTATT-ATTTTTATCTTATT
*
897286 TTTTATTTCTTTATT-TTTTCTATTTCTATT
1 TTTTATTTCTTTATTATTTT-TATCT-TATT
897316 TTTTATTT
1 TTTTATTT
897324 TCTATTTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
27 4 0.12
28 4 0.12
29 16 0.48
30 9 0.27
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (29 bp):
TTTTATTTCTTTATTATTTTTATCTTATT
Found at i:897317 original size:14 final size:14
Alignment explanation
Indices: 897285--897330 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
897275 TTTTATCTTA
*
897285 TTTTTATTTCTTTAT
1 TTTTTATTT-TCTAT
*
897300 TTTTTCTATTTCTAT
1 TTTTTAT-TTTCTAT
897315 TTTTTATTTTCTAT
1 TTTTTATTTTCTAT
897329 TT
1 TT
897331 ATATTTTTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 9 0.33
15 16 0.59
16 2 0.07
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTTATTTTCTAT
Found at i:897326 original size:20 final size:20
Alignment explanation
Indices: 897282--897338 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
897272 CATTTTTATC
*
897282 TTATTTT-TATTTC--TTTA
1 TTATTTTCTATTTCTATTTT
897299 TT-TTTTCTATTTCTATTTT
1 TTATTTTCTATTTCTATTTT
*
897318 TTATTTTCTATTTATATTTT
1 TTATTTTCTATTTCTATTTT
897338 T
1 T
897339 AGGGTCCAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 4 0.12
17 8 0.24
19 5 0.15
20 17 0.50
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (20 bp):
TTATTTTCTATTTCTATTTT
Found at i:898628 original size:3 final size:3
Alignment explanation
Indices: 898620--898651 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
898610 TATTTAATGT
898620 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
898652 TCTCTCTCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:899264 original size:13 final size:13
Alignment explanation
Indices: 899233--899312 Score: 70
Period size: 13 Copynumber: 6.2 Consensus size: 13
899223 AATTAATGTT
* *
899233 AGTCGACAATTAA
1 AGTCAACAATCAA
*
899246 AATCAACAATCAA
1 AGTCAACAATCAA
* * *
899259 AGTCAATAGTTAA
1 AGTCAACAATCAA
*
899272 AATCAACAATCAA
1 AGTCAACAATCAA
* *
899285 AGTCAACAGTTAA
1 AGTCAACAATCAA
*
899298 AATCAACAATCAA
1 AGTCAACAATCAA
899311 AG
1 AG
899313 CTAACAGTAG
Statistics
Matches: 49, Mismatches: 18, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
13 49 1.00
ACGTcount: A:0.54, C:0.17, G:0.09, T:0.20
Consensus pattern (13 bp):
AGTCAACAATCAA
Found at i:899271 original size:26 final size:26
Alignment explanation
Indices: 899233--899320 Score: 133
Period size: 26 Copynumber: 3.4 Consensus size: 26
899223 AATTAATGTT
* *
899233 AGTCGACAATTAAAATCAACAATCAA
1 AGTCAACAGTTAAAATCAACAATCAA
*
899259 AGTCAATAGTTAAAATCAACAATCAA
1 AGTCAACAGTTAAAATCAACAATCAA
899285 AGTCAACAGTTAAAATCAACAATCAA
1 AGTCAACAGTTAAAATCAACAATCAA
899311 AG-CTAACAGT
1 AGTC-AACAGT
899321 AGTCTACAGT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
25 1 0.02
26 56 0.98
ACGTcount: A:0.52, C:0.18, G:0.09, T:0.20
Consensus pattern (26 bp):
AGTCAACAGTTAAAATCAACAATCAA
Found at i:901367 original size:10 final size:10
Alignment explanation
Indices: 901352--901390 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
901342 AAAATATATT
*
901352 TTCATTTATA
1 TTCATTTATG
901362 TTCATTTATG
1 TTCATTTATG
*
901372 TTCGTTTATG
1 TTCATTTATG
901382 TTCATTTAT
1 TTCATTTAT
901391 TGCGTTCGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.21, C:0.10, G:0.08, T:0.62
Consensus pattern (10 bp):
TTCATTTATG
Found at i:904422 original size:31 final size:30
Alignment explanation
Indices: 904387--904464 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 30
904377 TTCAACGTCC
* * *
904387 AAGTGACCAGAACTTAATAAAACGATAACGT
1 AAGTGACCAAAACTTAA-AAAACAATAAAGT
*
904418 AAGTGACCAAAACTTTAAAAAATAATAAAGT
1 AAGTGACCAAAAC-TTAAAAAACAATAAAGT
*
904449 AAGAGACCAAAACTTA
1 AAGTGACCAAAACTTA
904465 TGTTTTTTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
30 3 0.07
31 34 0.83
32 4 0.10
ACGTcount: A:0.54, C:0.14, G:0.13, T:0.19
Consensus pattern (30 bp):
AAGTGACCAAAACTTAAAAAACAATAAAGT
Found at i:904594 original size:31 final size:31
Alignment explanation
Indices: 904556--904616 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
904546 TACATGGTCC
904556 CTAACGTTATCGATCCATTCGATTTTAGTCA
1 CTAACGTTATCGATCCATTCGATTTTAGTCA
* * *
904587 CTAACGTTATTGATTCGTTCGATTTTAGTC
1 CTAACGTTATCGATCCATTCGATTTTAGTC
904617 TTTCCGTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.43
Consensus pattern (31 bp):
CTAACGTTATCGATCCATTCGATTTTAGTCA
Found at i:905118 original size:16 final size:16
Alignment explanation
Indices: 905097--905134 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
905087 TTGAAAGATA
*
905097 CCACGTGTCATTGGTG
1 CCACGTGTCAGTGGTG
905113 CCACGTGTCAGTGGTG
1 CCACGTGTCAGTGGTG
*
905129 CTACGT
1 CCACGT
905135 ATCACCATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.13, C:0.26, G:0.32, T:0.29
Consensus pattern (16 bp):
CCACGTGTCAGTGGTG
Found at i:905194 original size:16 final size:16
Alignment explanation
Indices: 905173--905209 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
905163 ATTTCAATAC
*
905173 GACACGTAGTACTAAT
1 GACACGTAGTACCAAT
*
905189 GACACGTGGTACCAAT
1 GACACGTAGTACCAAT
905205 GACAC
1 GACAC
905210 ATGGCATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (16 bp):
GACACGTAGTACCAAT
Found at i:906229 original size:16 final size:16
Alignment explanation
Indices: 906210--906243 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
906200 CAATATACGA
906210 ATAAAAATATATTTAT
1 ATAAAAATATATTTAT
**
906226 ATAAATGTATATTTAT
1 ATAAAAATATATTTAT
906242 AT
1 AT
906244 TTAGATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:906317 original size:16 final size:18
Alignment explanation
Indices: 906285--906318 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
906275 TATTAATGTA
906285 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
906303 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
906319 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:906991 original size:130 final size:130
Alignment explanation
Indices: 906787--907034 Score: 424
Period size: 130 Copynumber: 1.9 Consensus size: 130
906777 AATTTTCTTC
* *
906787 TAATTAGGTGGTGACATGTGTCACCAATAACATATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
** *
906852 CCTGGTTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * *
906917 TAATTAGGTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
906982 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
907035 TATATAAATA
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 110 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.36
Consensus pattern (130 bp):
TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:907482 original size:35 final size:35
Alignment explanation
Indices: 907432--907507 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
907422 AATTGAATTT
* *
907432 AATTGAATTATTTTGGAATTTAGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
*
907467 AATTGAATTACTTTGGAAATTGGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
907502 AATTGA
1 AATTGA
907508 GGACTGTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.36, C:0.01, G:0.24, T:0.39
Consensus pattern (35 bp):
AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
Found at i:908158 original size:16 final size:18
Alignment explanation
Indices: 908114--908168 Score: 101
Period size: 18 Copynumber: 3.1 Consensus size: 18
908104 ACCCAAAGTG
908114 AAATAATATATTTATTAA
1 AAATAATATATTTATTAA
908132 AAATAATATATTTATTAA
1 AAATAATATATTTATTAA
*
908150 AAATAATATTTTTATTAA
1 AAATAATATATTTATTAA
908168 A
1 A
908169 TAAAAATAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AAATAATATATTTATTAA
Found at i:908172 original size:22 final size:22
Alignment explanation
Indices: 908147--908202 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
908137 ATATATTTAT
*
908147 TAAAAATAATATTTTTATTAAA
1 TAAAAATAATATTTTAATTAAA
*
908169 TAAAAATAGAGA-TTTAATTAAA
1 TAAAAATA-ATATTTTAATTAAA
908191 -AGAAAATAATAT
1 TA-AAAATAATAT
908203 ATAGATGAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 3 0.11
22 23 0.82
23 2 0.07
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (22 bp):
TAAAAATAATATTTTAATTAAA
Found at i:908868 original size:24 final size:24
Alignment explanation
Indices: 908838--908888 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
908828 TAATTAAAAT
**
908838 AATATTAAATTAATATAATTTA-TA
1 AATATTAAAAAAATA-AATTTATTA
908862 AATATTAAAAAAATAAATTTATTA
1 AATATTAAAAAAATAAATTTATTA
908886 AAT
1 AAT
908889 CATAATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
AATATTAAAAAAATAAATTTATTA
Found at i:912692 original size:128 final size:128
Alignment explanation
Indices: 912464--912722 Score: 491
Period size: 128 Copynumber: 2.0 Consensus size: 128
912454 ATTAGGAGAC
912464 CATTAAGGTTAAAATATAGCCTAGATAGTGAAAGGTGTAGGAAATGACCCAAATGGTAACTCACA
1 CATTAAGGTTAAAATATAGCCTAGATAGTGAAAGGTGTAGGAAATGACCCAAATGGTAACTCACA
*
912529 AGAGAGAAAATTATTGGATTAAAATCCATATTTTTGGCATATATGTATAATGTAGAATGTTAT
66 AGAGAGAAAATTATTGGATTAAAATCCATATTTTTGGCATATATGTATAATGTACAATGTTAT
*
912592 CATTAAGGTTAAAATATAGCCTAGATAGTGAAAGGTGTAGGAAATGGCCCAAATGGTAACTCACA
1 CATTAAGGTTAAAATATAGCCTAGATAGTGAAAGGTGTAGGAAATGACCCAAATGGTAACTCACA
*
912657 AGAGAGAAAATTGTTGGATTAAAATCCATATTTTTGGCATATATGTATAATGTACAATGTTAT
66 AGAGAGAAAATTATTGGATTAAAATCCATATTTTTGGCATATATGTATAATGTACAATGTTAT
912720 CAT
1 CAT
912723 AAAGTATGAC
Statistics
Matches: 128, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 128 1.00
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.31
Consensus pattern (128 bp):
CATTAAGGTTAAAATATAGCCTAGATAGTGAAAGGTGTAGGAAATGACCCAAATGGTAACTCACA
AGAGAGAAAATTATTGGATTAAAATCCATATTTTTGGCATATATGTATAATGTACAATGTTAT
Found at i:914010 original size:32 final size:33
Alignment explanation
Indices: 913966--914029 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
913956 TTACGTATAC
* *
913966 CATGAAATTCATGTCTTGATA-TTTTCAATTGT
1 CATGAAACTCATGGCTTGATATTTTTCAATTGT
913998 CATGAAACTCATGGCTTGATATTTTTCAATTG
1 CATGAAACTCATGGCTTGATATTTTTCAATTG
914030 CGATTCATGG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 19 0.66
33 10 0.34
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (33 bp):
CATGAAACTCATGGCTTGATATTTTTCAATTGT
Found at i:915365 original size:20 final size:20
Alignment explanation
Indices: 915340--915378 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
915330 AAGACATCTC
915340 TTTTCTTCGATATTAATAAT
1 TTTTCTTCGATATTAATAAT
*
915360 TTTTCTTTGATATTAATAA
1 TTTTCTTCGATATTAATAA
915379 ATAAATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.08, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTTCTTCGATATTAATAAT
Found at i:916863 original size:3 final size:3
Alignment explanation
Indices: 916857--916908 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
916847 TAATATTTAT
* *
916857 TAA TAA T-A TAA TAA TAA TAA TAA TTA TAA TAA TAA TGA TAA T-A TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
916904 TAA TA
1 TAA TA
916909 TTTAAATGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
2 4 0.10
3 36 0.86
4 2 0.05
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:916909 original size:9 final size:10
Alignment explanation
Indices: 916844--916909 Score: 68
Period size: 9 Copynumber: 6.9 Consensus size: 10
916834 TTTGGGCCTG
*
916844 TAATAATATT
1 TAATAATATA
*
916854 TATTAATAATA
1 TAATAAT-ATA
916865 TAATAATA-A
1 TAATAATATA
916874 TAATAAT-TA
1 TAATAATATA
916883 TAATAATA-A
1 TAATAATATA
*
916892 TGATAATATA
1 TAATAATATA
916902 -AATAATAT
1 TAATAATAT
916910 TTAAATGAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
9 31 0.66
10 8 0.17
11 8 0.17
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (10 bp):
TAATAATATA
Found at i:917576 original size:113 final size:113
Alignment explanation
Indices: 917263--917799 Score: 678
Period size: 113 Copynumber: 4.8 Consensus size: 113
917253 TATGCCAAAG
* *
917263 GTTGAACAAGCTCTTCTCATTGTGAACTTC-T-TT--TTCTTCAGATGAGTTCTTCTCATTATGA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
* ** * * * * * * *
917324 ATTTTCTTTGAAAAAGCTGATCCATTAAGTGATGGATTTGAGCAAAAT
66 ACTTTCACTGGAAATGTTGATCCATCAAGTGATGAATTTAAGCAAAAA
*
917372 GTTGAACAAATTCTTCTCATTATGAA--T-TTCTT-CTTCTTCAGATGACGAGTTCTTCTCATTA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTA
* * * * *
917433 TGAACTCT-ACCTGGAAATGTTGATCCATCAAATGATGAATTCAAACAAAAG
63 TGAACTTTCA-CTGGAAATGTTGATCCATCAAGTGATGAATTTAAGCAAAAA
* *
917484 GTTAAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
* *
917549 ACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGAATTTAAGCAAAAA
66 ACTTTCACTGGAAATGTTGATCCATCAAGTGATGAATTTAAGCAAAAA
*
917597 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
* * * * * * **
917662 ACTCTAACTGGCACTGCTGATCCACCGGGTGATGAATTTAAGCAAAAA
66 ACTTTCACTGGAAATGTTGATCCATCAAGTGATGAATTTAAGCAAAAA
917710 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
* *
917775 ACTCTAACTGGAAATGTTGATCCAT
66 ACTTTCACTGGAAATGTTGATCCAT
917800 TGAATGATGG
Statistics
Matches: 373, Mismatches: 43, Indels: 20
0.86 0.10 0.05
Matches are distributed among these distances:
107 2 0.01
108 2 0.01
109 33 0.09
112 76 0.20
113 243 0.65
114 1 0.00
115 5 0.01
116 11 0.03
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (113 bp):
GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
ACTTTCACTGGAAATGTTGATCCATCAAGTGATGAATTTAAGCAAAAA
Found at i:918703 original size:114 final size:114
Alignment explanation
Indices: 918503--918726 Score: 367
Period size: 114 Copynumber: 2.0 Consensus size: 114
918493 CAATCATGCT
* * * * **
918503 ATTCATCTTTCAATTCTAATGATTGGTTCTGTGGTTCCTACTGAACCAGATCAGATAACTCAAAG
1 ATTCATCTTTCAAATCTAATAATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
918568 AACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAA
66 AACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAA
* *
918617 ATTCATCTTTCAAATCTAATAATTGGTTTTGGGGTTTATACCAAACCAGATCAGATAACTCAAAG
1 ATTCATCTTTCAAATCTAATAATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
*
918682 AACACTTCCAGAAGATGCTATTGGGTCTCTTTATTTCTACTATGA
66 AACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGA
918727 TAACGTGGCA
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 101 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (114 bp):
ATTCATCTTTCAAATCTAATAATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
AACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAA
Found at i:919048 original size:19 final size:17
Alignment explanation
Indices: 919021--919068 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
919011 AAATAAAAGG
*
919021 ATAAGTTGAATTTTCGAAA
1 ATAAATTGAATTTTC--AA
*
919040 ATAAATTGAA-TCTCAA
1 ATAAATTGAATTTTCAA
919056 ATAAATTGAATTT
1 ATAAATTGAATTT
919069 AGAGAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 12 0.48
17 1 0.04
18 3 0.12
19 9 0.36
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.38
Consensus pattern (17 bp):
ATAAATTGAATTTTCAA
Found at i:919441 original size:10 final size:9
Alignment explanation
Indices: 919421--919452 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
919411 CTTGACCCAC
919421 TTTTTTCTT
1 TTTTTTCTT
919430 TTTTTTCTT
1 TTTTTTCTT
919439 TTTTTTCATT
1 TTTTTTC-TT
919449 TTTT
1 TTTT
919453 CTTCAAGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 16 0.73
10 6 0.27
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:919441 original size:17 final size:18
Alignment explanation
Indices: 919421--919455 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
919411 CTTGACCCAC
*
919421 TTTTTTCTTTTTTTTCTT
1 TTTTTTCTATTTTTTCTT
919439 TTTTTTC-ATTTTTTCTT
1 TTTTTTCTATTTTTTCTT
919456 CAAGCATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (18 bp):
TTTTTTCTATTTTTTCTT
Found at i:919451 original size:11 final size:10
Alignment explanation
Indices: 919421--919457 Score: 51
Period size: 9 Copynumber: 3.8 Consensus size: 10
919411 CTTGACCCAC
919421 TTTTTTC-TT
1 TTTTTTCATT
919430 TTTTTTC-TT
1 TTTTTTCATT
919439 TTTTTTCATT
1 TTTTTTCATT
919449 TTTTCTTCA
1 TTTT-TTCA
919458 AGCATAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 16 0.62
10 6 0.23
11 4 0.15
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTTCATT
Found at i:926799 original size:15 final size:15
Alignment explanation
Indices: 926776--926809 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
926766 ATACAATGAT
*
926776 AATGAATGTATGCAG
1 AATGAATGTATGCAA
*
926791 AATGCATGTATGCAA
1 AATGAATGTATGCAA
926806 AATG
1 AATG
926810 TATTAATCCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.26
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:928307 original size:93 final size:93
Alignment explanation
Indices: 928148--928333 Score: 372
Period size: 93 Copynumber: 2.0 Consensus size: 93
928138 GACGACCTTC
928148 ATACTGTCTTATGACCAGAAATGGTGCATATCCAATTCCTCCCCACAATCTGAGCAGCATTATCC
1 ATACTGTCTTATGACCAGAAATGGTGCATATCCAATTCCTCCCCACAATCTGAGCAGCATTATCC
928213 AGTTGTAATCACCACATTTGTAAAAGAA
66 AGTTGTAATCACCACATTTGTAAAAGAA
928241 ATACTGTCTTATGACCAGAAATGGTGCATATCCAATTCCTCCCCACAATCTGAGCAGCATTATCC
1 ATACTGTCTTATGACCAGAAATGGTGCATATCCAATTCCTCCCCACAATCTGAGCAGCATTATCC
928306 AGTTGTAATCACCACATTTGTAAAAGAA
66 AGTTGTAATCACCACATTTGTAAAAGAA
928334 TTCCCTTTGG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (93 bp):
ATACTGTCTTATGACCAGAAATGGTGCATATCCAATTCCTCCCCACAATCTGAGCAGCATTATCC
AGTTGTAATCACCACATTTGTAAAAGAA
Found at i:930011 original size:15 final size:16
Alignment explanation
Indices: 929986--930024 Score: 62
Period size: 15 Copynumber: 2.4 Consensus size: 16
929976 ATACATGAAA
929986 ATAAAATAAAATATAT
1 ATAAAATAAAATATAT
930002 ATAAAA-AAAATATAT
1 ATAAAATAAAATATAT
930017 ATATAAAT
1 ATA-AAAT
930025 TATGAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
ATAAAATAAAATATAT
Found at i:930011 original size:20 final size:20
Alignment explanation
Indices: 929969--930013 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
929959 ATTAATAATG
*
929969 AAATAAAATACATGAAAATA
1 AAATAAAATACATGAAAAAA
*
929989 AAATAAAATATAT-ATAAAAA
1 AAATAAAATACATGA-AAAAA
930009 AAATA
1 AAATA
930014 TATATATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (20 bp):
AAATAAAATACATGAAAAAA
Found at i:930016 original size:17 final size:16
Alignment explanation
Indices: 929986--930023 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
929976 ATACATGAAA
*
929986 ATAAAATAAAATATAT
1 ATAAAAAAAAATATAT
930002 ATAAAAAAAATATATAT
1 ATAAAAAAAA-ATATAT
930019 ATAAA
1 ATAAA
930024 TTATGAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
ATAAAAAAAAATATAT
Found at i:930032 original size:24 final size:22
Alignment explanation
Indices: 929988--930056 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 22
929978 ACATGAAAAT
* *
929988 AAAATA-AAATATA-TATAAAA
1 AAAATATAAATAAATTATGAAA
930008 AAAATATATATATAAATTATGAAA
1 AAAATATA-A-ATAAATTATGAAA
* *
930032 ATAATATAAATAAATTTTGAAA
1 AAAATATAAATAAATTATGAAA
930054 AAA
1 AAA
930057 TGAATTTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
20 6 0.15
21 1 0.03
22 15 0.38
23 5 0.12
24 13 0.32
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (22 bp):
AAAATATAAATAAATTATGAAA
Found at i:930057 original size:24 final size:24
Alignment explanation
Indices: 930006--930071 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 24
929996 ATATATATAA
*
930006 AAAAAAT-ATATATATAAATTATG
1 AAAAAATAATATAAATAAATTATG
*
930029 --AAAATAATATAAATAAATTTTG
1 AAAAAATAATATAAATAAATTATG
* *
930051 AAAAAATGAATTTTAATAAAT
1 AAAAAAT-AATATAAATAAAT
930072 ATATTTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 5 0.14
22 14 0.40
24 5 0.14
25 11 0.31
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.35
Consensus pattern (24 bp):
AAAAAATAATATAAATAAATTATG
Found at i:930503 original size:13 final size:14
Alignment explanation
Indices: 930468--930505 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
930458 TCTTCGATAT
930468 TAATAAATATTATAA
1 TAATAAAT-TTATAA
930483 TAATAAATTTA-AA
1 TAATAAATTTATAA
*
930496 TTATAAATTT
1 TAATAAATTT
930506 TTTTATAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.50
14 3 0.14
15 8 0.36
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TAATAAATTTATAA
Found at i:932073 original size:3 final size:3
Alignment explanation
Indices: 932067--932106 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
932057 TAATATTTAT
932067 TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA T-A TAAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TA
932107 TTTAAATGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.12
3 28 0.82
4 2 0.06
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:932107 original size:9 final size:10
Alignment explanation
Indices: 932054--932107 Score: 55
Period size: 9 Copynumber: 5.9 Consensus size: 10
932044 TTTGGGCCTG
*
932054 TAATAATATT
1 TAATAATATA
*
932064 TATTAATA-A
1 TAATAATATA
932073 TAA-AATA-A
1 TAATAATATA
932081 TAATAATA-A
1 TAATAATATA
932090 TAATAATATA
1 TAATAATATA
932100 -AATAATAT
1 TAATAATAT
932108 TTAAATGAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
8 8 0.21
9 23 0.59
10 8 0.21
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
TAATAATATA
Found at i:932325 original size:20 final size:20
Alignment explanation
Indices: 932300--932352 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
932290 GACCAACAAA
932300 TTCGCAACGCGAACTCCAAT
1 TTCGCAACGCGAACTCCAAT
* **
932320 TTCGCAAC-CCAGTTTCCAAT
1 TTCGCAACGCGA-ACTCCAAT
932340 TTCGCAACGCGAA
1 TTCGCAACGCGAA
932353 TATGTTAATC
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
19 2 0.08
20 22 0.85
21 2 0.08
ACGTcount: A:0.28, C:0.34, G:0.15, T:0.23
Consensus pattern (20 bp):
TTCGCAACGCGAACTCCAAT
Found at i:932385 original size:21 final size:21
Alignment explanation
Indices: 932361--932405 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
932351 AATATGTTAA
932361 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
932382 TCGCGTTGCGATTTTCCAATT
1 TCGCATTGCGATTTTCCAAAT
932403 TCG
1 TCG
932406 TAACGCGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:932509 original size:21 final size:20
Alignment explanation
Indices: 932423--932570 Score: 144
Period size: 20 Copynumber: 7.3 Consensus size: 20
932413 AATCTGTAAA
*
932423 TCGCAACATAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
* *
932443 TCACAACGC-GATAGTCAAAT
1 TCGCAACACAGA-AGTCAAAT
*
932463 TCGTAACACA-AATTTGT-AAA-
1 TCGCAACACAGAA---GTCAAAT
932483 TCGCAACACAGAAGTCAAATT
1 TCGCAACACAGAAGTCAAA-T
932504 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
932524 TCGCAACGCA-ATAGTCAAAT
1 TCGCAACACAGA-AGTCAAAT
*
932544 TCGCAACACAAAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
932564 TCACAAC
1 TCGCAAC
932571 TGAATTTCAA
Statistics
Matches: 107, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
18 2 0.02
19 7 0.07
20 71 0.66
21 25 0.23
22 2 0.02
ACGTcount: A:0.44, C:0.24, G:0.13, T:0.20
Consensus pattern (20 bp):
TCGCAACACAGAAGTCAAAT
Found at i:932550 original size:61 final size:61
Alignment explanation
Indices: 932418--932570 Score: 181
Period size: 61 Copynumber: 2.5 Consensus size: 61
932408 ACGCGAATCT
* * * *
932418 GTAAATCGCAACATAGAAGTCAAA-TTCACAACGCGATAGTCAAATTCGTAACACAAATTT
1 GTAAATCGCAACACAGAAGTCAAATTTCACAACACGATAGTCAAATTCGCAACACAAATTA
* *
932478 GTAAATCGCAACACAGAAGTCAAATTTCGCAACACAGA-AGTCAAATTCGCAACGC-AA-TA
1 GTAAATCGCAACACAGAAGTCAAATTTCACAACAC-GATAGTCAAATTCGCAACACAAATTA
*
932537 GTCAAATTCGCAACACAAAAGTCAAA-TTCACAAC
1 GT-AAA-TCGCAACACAGAAGTCAAATTTCACAAC
932571 TGAATTTCAA
Statistics
Matches: 81, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
59 3 0.04
60 35 0.43
61 41 0.51
62 2 0.02
ACGTcount: A:0.44, C:0.23, G:0.13, T:0.20
Consensus pattern (61 bp):
GTAAATCGCAACACAGAAGTCAAATTTCACAACACGATAGTCAAATTCGCAACACAAATTA
Found at i:932589 original size:19 final size:19
Alignment explanation
Indices: 932567--932608 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
932557 GTCAAATTCA
932567 CAACTGAATTTCAAAATCG
1 CAACTGAATTTCAAAATCG
*
932586 CAACTGAATTTCAAATTCG
1 CAACTGAATTTCAAAATCG
932605 CAAC
1 CAAC
932609 ACGAATTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.40, C:0.24, G:0.10, T:0.26
Consensus pattern (19 bp):
CAACTGAATTTCAAAATCG
Found at i:932616 original size:20 final size:20
Alignment explanation
Indices: 932423--932614 Score: 123
Period size: 20 Copynumber: 9.7 Consensus size: 20
932413 AATCTGTAAA
*
932423 TCGCAACATAGAA-GTCAAAT
1 TCGCAACA-CGAATGTCAAAT
* *
932443 TCACAACGCG-ATAGTCAAAT
1 TCGCAACACGAAT-GTCAAAT
* *
932463 TCGTAACACAAATTTGT-AAA-
1 TCGCAACACGAA--TGTCAAAT
932483 TCGCAACACAGAA-GTCAAATT
1 TCGCAACAC-GAATGTCAAA-T
932504 TCGCAACACAGAA-GTCAAAT
1 TCGCAACAC-GAATGTCAAAT
*
932524 TCGCAACGC-AATAGTCAAAT
1 TCGCAACACGAAT-GTCAAAT
* *
932544 TCGCAACACAAAAGTCAAAT
1 TCGCAACACGAATGTCAAAT
* * * *
932564 TCACAAC-TGAATTTCAAAA
1 TCGCAACACGAATGTCAAAT
* *
932583 TCGCAAC-TGAATTTCAAAT
1 TCGCAACACGAATGTCAAAT
932602 TCGCAACACGAAT
1 TCGCAACACGAAT
932615 TTAGTTTCGC
Statistics
Matches: 138, Mismatches: 21, Indels: 26
0.75 0.11 0.14
Matches are distributed among these distances:
18 5 0.04
19 35 0.25
20 68 0.49
21 27 0.20
22 2 0.01
23 1 0.01
ACGTcount: A:0.43, C:0.23, G:0.12, T:0.21
Consensus pattern (20 bp):
TCGCAACACGAATGTCAAAT
Found at i:933377 original size:12 final size:12
Alignment explanation
Indices: 933356--933389 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
933346 ACCACATTTC
*
933356 CAATACCAAACA
1 CAATATCAAACA
933368 CAATATCAAACA
1 CAATATCAAACA
*
933380 CAATCTCAAA
1 CAATATCAAA
933390 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:933542 original size:24 final size:24
Alignment explanation
Indices: 933515--933568 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
933505 GTATTCGAAA
933515 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
933539 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
933563 TTTGAT
1 TTTGAT
933569 GATGTGATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:936675 original size:39 final size:39
Alignment explanation
Indices: 936590--936676 Score: 138
Period size: 39 Copynumber: 2.2 Consensus size: 39
936580 TCCGATGCTC
* *
936590 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGGA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAAGAA
* *
936629 ATAAAAATCCAAATCTCATATGGTGCCAAGCAAAAAGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAAGAA
936668 ATCAAAATC
1 ATCAAAATC
936677 TACAACTTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.48, C:0.20, G:0.15, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAAGAA
Found at i:936915 original size:176 final size:177
Alignment explanation
Indices: 936621--936973 Score: 699
Period size: 176 Copynumber: 2.0 Consensus size: 177
936611 GGTGCCAAGC
936621 AAAAGGGAATAAAAATCCAAATCTCATATGGTGCCAAGCAAAAAGAAATCAAAATCTACAACTTG
1 AAAAGGGAATAAAAATCCAAATCTCATATGGTGCCAAGCAAAAAGAAATCAAAATCTACAACTTG
936686 AGTTTGAAAATTGATATGATCTGTTCAGTTGATCATGTTGGGATTTTCTCTTGTGTTTGATTTTT
66 AGTTTGAAAATTGATATGATCTGTTCAGTTGATCATGTTGGGATTTTCTCTTGTGTTTGATTTTT
936751 TGGATAGTTGTTCTCGTGCTTCTTC-AGTGTCCTTAGCTTGTATTTA
131 TGGATAGTTGTTCTCGTGCTTCTTCAAGTGTCCTTAGCTTGTATTTA
936797 AAAAGGGAATAAAAATCCAAATCTCATATGGTGCCAAGCAAAAAGAAATCAAAATCTACAACTTG
1 AAAAGGGAATAAAAATCCAAATCTCATATGGTGCCAAGCAAAAAGAAATCAAAATCTACAACTTG
936862 AGTTTGAAAATTGATATGATCTGTTCAGTTGATCATGTTGGGATTTTCTCTTGTGTTTGATTTTT
66 AGTTTGAAAATTGATATGATCTGTTCAGTTGATCATGTTGGGATTTTCTCTTGTGTTTGATTTTT
936927 TGGATAGTTGTTCTCGTGCTTCTTCAAGTGTCCTTAGCTTGTATTTA
131 TGGATAGTTGTTCTCGTGCTTCTTCAAGTGTCCTTAGCTTGTATTTA
936974 TAGCTTGGAA
Statistics
Matches: 176, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
176 155 0.88
177 21 0.12
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.38
Consensus pattern (177 bp):
AAAAGGGAATAAAAATCCAAATCTCATATGGTGCCAAGCAAAAAGAAATCAAAATCTACAACTTG
AGTTTGAAAATTGATATGATCTGTTCAGTTGATCATGTTGGGATTTTCTCTTGTGTTTGATTTTT
TGGATAGTTGTTCTCGTGCTTCTTCAAGTGTCCTTAGCTTGTATTTA
Found at i:938290 original size:21 final size:21
Alignment explanation
Indices: 938209--938301 Score: 57
Period size: 21 Copynumber: 4.4 Consensus size: 21
938199 GCGGGCGGGA
*
938209 CCTCTTGAACGATGACG-GGGG
1 CCTCTTGAACGAT-AGGAGGGG
* * * *
938230 CCTCTTGAATGGTGGGAGTGG
1 CCTCTTGAACGATAGGAGGGG
* *
938251 CTTCTTCG-ATGAT-GAGAGGGG
1 CCTCTT-GAACGATAG-GAGGGG
**
938272 CCTCTTGAACGATAGGAGGCA
1 CCTCTTGAACGATAGGAGGGG
938293 CCTCTTGAA
1 CCTCTTGAA
938302 TGATGATAGG
Statistics
Matches: 55, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
20 3 0.05
21 50 0.91
22 2 0.04
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.25
Consensus pattern (21 bp):
CCTCTTGAACGATAGGAGGGG
Done.