Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007805.1 Hibiscus syriacus cultivar Beakdansim tig00110123_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: 2708727
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 11
Found at i:2149374 original size:20 final size:20
Alignment explanation
Indices: 2149320--2149379 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
2149310 AGGGTGTCAA
2149320 AGTGTATCCATACAC-CTGC
1 AGTGTATCCATACACTCTGC
* * *
2149339 AATGTATCTATGCACTCTGC
1 AGTGTATCCATACACTCTGC
*
2149359 AGTGTATCCATACACTATGC
1 AGTGTATCCATACACTCTGC
2149379 A
1 A
2149380 TCGATTCACC
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
19 12 0.36
20 21 0.64
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (20 bp):
AGTGTATCCATACACTCTGC
Found at i:2149646 original size:21 final size:21
Alignment explanation
Indices: 2149617--2149656 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
2149607 TTATTACAGA
2149617 AAAATCATCTCCAAATGGCTCC
1 AAAATCATC-CCAAATGGCTCC
*
2149639 AAAA-CATCCCCAATGGCT
1 AAAATCATCCCAAATGGCT
2149657 ATATACGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 4 0.24
22 4 0.24
ACGTcount: A:0.38, C:0.33, G:0.10, T:0.20
Consensus pattern (21 bp):
AAAATCATCCCAAATGGCTCC
Found at i:2149926 original size:34 final size:33
Alignment explanation
Indices: 2149869--2149936 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 33
2149859 TTTTGTAAAG
* *
2149869 GGGAAATGTTCTACCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTACCTTAGCCCGTG-AAAAACTA
** *
2149903 GGGAAAGGTTCTAGTTTATCCCGTGAAAAACTA
1 GGGAAAGGTTCTACCTTAGCCCGTGAAAAACTA
2149936 G
1 G
2149937 AGAGTTGTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 8 0.28
34 21 0.72
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (33 bp):
GGGAAAGGTTCTACCTTAGCCCGTGAAAAACTA
Found at i:2151777 original size:3 final size:3
Alignment explanation
Indices: 2151763--2151801 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
2151753 TAAATTAAAG
*
2151763 TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2151802 AACACTGGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:2159938 original size:153 final size:156
Alignment explanation
Indices: 2159754--2160060 Score: 568
Period size: 153 Copynumber: 2.0 Consensus size: 156
2159744 ATGAAATAAC
2159754 AAGTTGGGGACTAATCACAACCATATCAAAAAAAAAGGTCAGAACAAGAACAAATAAATTTCATT
1 AAGTTGGGGACTAATCACAACCATATCAAAAAAAAAGGTCAGAACAAGAACAAATAAATTTCATT
2159819 TGATGACCAAAACGAACATTGCATAAATAATGAGCTTG-AA-AACATAAA-TAAAGCTTTATTAG
66 TGATGACCAAAACGAACATTGCATAAATAATGAGCTTGAAATAACATAAAGTAAAGCTTTATTAG
2159881 TGACTAGAAT-ACAAGTTACAAAAAG
131 TGACTAGAATAACAAGTTACAAAAAG
*
2159906 AAGTTGGGGACTAAATCACAACCATATCAAAAATAAAGGTCAGAACAAGAACAAATAAATTTCAT
1 AAGTTGGGGACT-AATCACAACCATATCAAAAAAAAAGGTCAGAACAAGAACAAATAAATTTCAT
2159971 TTGATGACCAAAACGAACATTGCATAAATAATGAGCTTGAAATAACATAAAGTAAAGCTTTATTA
65 TTGATGACCAAAACGAACATTGCATAAATAATGAGCTTGAAATAACATAAAGTAAAGCTTTATTA
2160036 GTGACTAGAATAACAAGTTACAAAA
130 GTGACTAGAATAACAAGTTACAAAA
2160061 CAAGAAGGCC
Statistics
Matches: 149, Mismatches: 1, Indels: 5
0.96 0.01 0.03
Matches are distributed among these distances:
152 12 0.08
153 90 0.60
154 2 0.01
155 8 0.05
156 24 0.16
157 13 0.09
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.23
Consensus pattern (156 bp):
AAGTTGGGGACTAATCACAACCATATCAAAAAAAAAGGTCAGAACAAGAACAAATAAATTTCATT
TGATGACCAAAACGAACATTGCATAAATAATGAGCTTGAAATAACATAAAGTAAAGCTTTATTAG
TGACTAGAATAACAAGTTACAAAAAG
Found at i:2160712 original size:18 final size:18
Alignment explanation
Indices: 2160691--2160734 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
2160681 CACGTGTCGA
2160691 TTGGGTGGATGATATTTG
1 TTGGGTGGATGATATTTG
*
2160709 TTGGGTGGCTGATATTTG
1 TTGGGTGGATGATATTTG
2160727 TTGGGTGG
1 TTGGGTGG
2160735 TGGTGGCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.11, C:0.02, G:0.43, T:0.43
Consensus pattern (18 bp):
TTGGGTGGATGATATTTG
Found at i:2161008 original size:3 final size:3
Alignment explanation
Indices: 2161000--2161043 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
2160990 TAAATTAAAG
* * * *
2161000 TAA TAA TAA TAA TAA TAA CAA CAA CAA CAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
2161044 CCCATGGCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (3 bp):
TAA
Found at i:2163087 original size:3 final size:3
Alignment explanation
Indices: 2163081--2163136 Score: 60
Period size: 3 Copynumber: 18.7 Consensus size: 3
2163071 ATTTTTGTTT
** *
2163081 TTA TTA TTA TTA AAA TTA TTA TTA TTA TTAA ATA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
*
2163126 TAA TTA TTA TT
1 TTA TTA TTA TT
2163137 TACAAACAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
2 2 0.05
3 39 0.91
4 2 0.05
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:2163104 original size:18 final size:18
Alignment explanation
Indices: 2163081--2163136 Score: 82
Period size: 18 Copynumber: 3.3 Consensus size: 18
2163071 ATTTTTGTTT
2163081 TTATTATTATTAAAATTA
1 TTATTATTATTAAAATTA
2163099 TTATTATTATT-AAA-TA
1 TTATTATTATTAAAATTA
*
2163115 TTATTA-TATTATAATTA
1 TTATTATTATTAAAATTA
2163132 TTATT
1 TTATT
2163137 TACAAACAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
15 4 0.11
16 10 0.29
17 10 0.29
18 11 0.31
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTATTATTATTAAAATTA
Found at i:2163195 original size:26 final size:26
Alignment explanation
Indices: 2163146--2163197 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
2163136 TTACAAACAA
* * **
2163146 TTACAAACAAAACTGGACTGGCCCAG
1 TTACAAACAAAACAGAACCAGCCCAG
2163172 TTACAAACAAAACAGAACCAGCCCAG
1 TTACAAACAAAACAGAACCAGCCCAG
2163198 ACCAACTAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.44, C:0.29, G:0.15, T:0.12
Consensus pattern (26 bp):
TTACAAACAAAACAGAACCAGCCCAG
Found at i:2167616 original size:14 final size:16
Alignment explanation
Indices: 2167589--2167620 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
2167579 GTATTCTTAC
2167589 TTTTTGCATCTTTGCA
1 TTTTTGCATCTTTGCA
2167605 TTTTT-CAT-TTTGCA
1 TTTTTGCATCTTTGCA
2167619 TT
1 TT
2167621 CATACTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.12, C:0.16, G:0.09, T:0.62
Consensus pattern (16 bp):
TTTTTGCATCTTTGCA
Found at i:2169735 original size:2 final size:2
Alignment explanation
Indices: 2169728--2169778 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
2169718 TTTATCCTTA
*
2169728 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT CT 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
2169769 AT AT AT AT AT
1 AT AT AT AT AT
2169779 CCTTTGTTGT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2172550 original size:115 final size:115
Alignment explanation
Indices: 2172299--2172529 Score: 376
Period size: 115 Copynumber: 2.0 Consensus size: 115
2172289 AAGTGCCATG
*
2172299 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGTGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* * * * * *
2172364 TGGTTTGGTATGAACCTCAAAAACCAATCATTGGATTTTAAAGATGAATT
66 TGGTTCGGTAGGAACCACAAAAACCAATCATTGGAATTAAAAGATGAATC
2172414 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
*
2172479 TGGTTCGGTAGGAACCAC-AGAACCAATCATTGGAATTAAAAGATGAA-C
66 TGGTTCGGTAGGAACCACAAAAACCAATCATTGGAATTAAAAGATGAATC
2172527 TGC
1 TGC
2172530 ATGATTATCT
Statistics
Matches: 108, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
113 3 0.03
114 26 0.24
115 79 0.73
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (115 bp):
TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
TGGTTCGGTAGGAACCACAAAAACCAATCATTGGAATTAAAAGATGAATC
Found at i:2175007 original size:22 final size:22
Alignment explanation
Indices: 2174978--2175032 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
2174968 ATCTACACTC
*
2174978 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTATCTT
*
2175000 TTTAAAGATGATAGATTATCTT
1 TTCAAAGATGATAGATTATCTT
2175022 TTCAAAGATGA
1 TTCAAAGATGA
2175033 ACGCTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTATCTT
Found at i:2176083 original size:181 final size:183
Alignment explanation
Indices: 2175748--2176115 Score: 625
Period size: 181 Copynumber: 2.0 Consensus size: 183
2175738 AATCAACATG
2175748 TTATTTTGAAAAAAAATGAGAAAACGACTTCCATAGTTTCTCATTCAATATTTTCTAAAAATGAA
1 TTATTTTGAAAAAAAATGAGAAAACGACTTCCATAGTTTCTCATTCAATATTTTCTAAAAATGAA
2175813 ATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTTTACTTAGTAAACTATTTCTCACATC
66 ATTGTTGAAAAGTAAGAAAACGATTTCCTTAG--TTTTTTTACTTAGTAAACTATTTCTCACATC
*
2175878 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGTTGT
129 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
* * ** *
2175933 TTATTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTTTATCTTTTCT-AAAATGAA
1 TTATTTTGAAAAAAAATGAGAAAACGACTTCCATAGTTTCTCATTCAATATTTTCTAAAAATGAA
*
2175997 ATTGTTGAAAAGTAAGAAAGCGATTTCCTTAG-TTTTTTACTTAGTAAACTATTTC-CTACATCT
66 ATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCTC-ACATCT
2176060 GTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
130 GTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
2176114 TT
1 TT
2176116 TCAAAGCCTT
Statistics
Matches: 175, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
180 1 0.01
181 84 0.48
184 39 0.22
185 51 0.29
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (183 bp):
TTATTTTGAAAAAAAATGAGAAAACGACTTCCATAGTTTCTCATTCAATATTTTCTAAAAATGAA
ATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCTCACATCTG
TAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
Found at i:2176142 original size:76 final size:76
Alignment explanation
Indices: 2176055--2176692 Score: 1170
Period size: 76 Copynumber: 8.4 Consensus size: 76
2176045 CTATTTCCTA
2176055 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2176120 AGCCTTAGGGT
66 AGCCTTAGGGT
2176131 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2176196 AGCCTTAGGGT
66 AGCCTTAGGGT
2176207 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGATTTT-A
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG-TTTTCA
*
2176271 AAGCCTTAGGTT
65 AAGCCTTAGGGT
*
2176283 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2176348 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
2176359 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCTTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2176424 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
2176435 CATTTGTAAGGCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2176500 AGCCTTAGGGT
66 AGCCTTAGGGT
2176511 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
2176576 AACCTTAGGGT
66 AGCCTTAGGGT
2176587 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
2176652 AACCTTATGGT
66 AGCCTTAGGGT
*
2176663 CATTTGTAAGTCCTGCAGTGCATGATGTTT
1 CATCTGTAAGTCCTGCAGTGCATGATGTTT
2176693 TTAAGACCTC
Statistics
Matches: 548, Mismatches: 12, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
75 4 0.01
76 540 0.99
77 4 0.01
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:2176859 original size:3 final size:3
Alignment explanation
Indices: 2176853--2176917 Score: 78
Period size: 3 Copynumber: 21.7 Consensus size: 3
2176843 ATTTTTGTTT
** *
2176853 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTAA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
*
2176899 TTA -TA TTA TAA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
2176918 TACAAACAGT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
2 2 0.04
3 48 0.92
4 2 0.04
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:2176960 original size:26 final size:26
Alignment explanation
Indices: 2176924--2176978 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
2176914 TATTTACAAA
* *
2176924 CAGTTACAAACAAAACTGGACCGGCC
1 CAGTTACAAACAAAACAGAACCGGCC
2176950 CAGTTACAAACAAAACAGAACCGGCC
1 CAGTTACAAACAAAACAGAACCGGCC
2176976 CAG
1 CAG
2176979 ACCAACCAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.42, C:0.31, G:0.18, T:0.09
Consensus pattern (26 bp):
CAGTTACAAACAAAACAGAACCGGCC
Found at i:2182963 original size:27 final size:27
Alignment explanation
Indices: 2182941--2183015 Score: 141
Period size: 27 Copynumber: 2.8 Consensus size: 27
2182931 CTTGATGTTG
*
2182941 TGGACTTTCAAGTTCAAAGTGATGCTA
1 TGGAGTTTCAAGTTCAAAGTGATGCTA
2182968 TGGAGTTTCAAGTTCAAAGTGATGCTA
1 TGGAGTTTCAAGTTCAAAGTGATGCTA
2182995 TGGAGTTTCAAGTTCAAAGTG
1 TGGAGTTTCAAGTTCAAAGTG
2183016 GTGATGGCGG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
TGGAGTTTCAAGTTCAAAGTGATGCTA
Found at i:2184838 original size:17 final size:18
Alignment explanation
Indices: 2184806--2184841 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
2184796 TTATTAAATT
*
2184806 TTATAAATTGAAAATTAA
1 TTATAAAATGAAAATTAA
2184824 TTATAAAAT-AAAATTAA
1 TTATAAAATGAAAATTAA
2184841 T
1 T
2184842 GATATTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
TTATAAAATGAAAATTAA
Found at i:2184856 original size:15 final size:14
Alignment explanation
Indices: 2184831--2184870 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
2184821 TAATTATAAA
*
2184831 ATAAAATTAATGAT
1 ATAAAAATAATGAT
2184845 ATTAAAAATAATGAT
1 A-TAAAAATAATGAT
2184860 ATAAAATATAA
1 ATAAAA-ATAA
2184871 ATATATACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (14 bp):
ATAAAAATAATGAT
Found at i:2185014 original size:24 final size:25
Alignment explanation
Indices: 2184967--2185015 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
2184957 TTATTACAAA
*
2184967 ATAATGTTAGTATTTTTTTTGAGTGAT
1 ATAATGTTAGTA--TTTTTCGAGTGAT
2184994 ATAATGTTAGTA-TTTTCGAGTG
1 ATAATGTTAGTATTTTTCGAGTG
2185016 TGATTAGGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 9 0.43
27 12 0.57
ACGTcount: A:0.27, C:0.02, G:0.20, T:0.51
Consensus pattern (25 bp):
ATAATGTTAGTATTTTTCGAGTGAT
Found at i:2185996 original size:29 final size:28
Alignment explanation
Indices: 2185964--2186029 Score: 71
Period size: 30 Copynumber: 2.3 Consensus size: 28
2185954 AAAATATAGT
*
2185964 ATTATAATATAGACACTTAAAAATATTAA
1 ATTATAATATA-ACACTTAAAAATACTAA
* *
2185993 ATTATATAATTTAACATTTAAAAATACTAA
1 A-T-TATAATATAACACTTAAAAATACTAA
2186023 A-TATAAT
1 ATTATAAT
2186030 TTATTTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
27 6 0.19
29 1 0.03
30 17 0.53
31 8 0.25
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.38
Consensus pattern (28 bp):
ATTATAATATAACACTTAAAAATACTAA
Found at i:2186016 original size:30 final size:31
Alignment explanation
Indices: 2185966--2186024 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
2185956 AATATAGTAT
*
2185966 TATAATATAGACACTTAAAAATATTAAATTA
1 TATAATATAGACACTTAAAAATACTAAATTA
* *
2185997 TATAATTTA-ACATTTAAAAATACTAAAT
1 TATAATATAGACACTTAAAAATACTAAAT
2186025 ATAATTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (31 bp):
TATAATATAGACACTTAAAAATACTAAATTA
Found at i:2187138 original size:112 final size:110
Alignment explanation
Indices: 2186989--2187315 Score: 270
Period size: 112 Copynumber: 2.9 Consensus size: 110
2186979 ATTGTACATC
* *
2186989 TTAACATTAAAAATATATTTTATTTTTATATTAACTTATTAAATATATTTTATTCTTGTCATAAC
1 TTAAC-TT-AAAACATATTTTATTCTTATATTAACTTATTAAATATATTTTATTCTT-TC-TAA-
* *
2187054 CTAAAAATATATTTTATTCTTATTTAACTTAAAAATATTTAGTCT-TTATT
61 CTAAAAATATATTTTATTCTTATTTAACTTAAAAATAATTAAT-TATTATT
* * * * * *
2187104 TTAACTTAAAA-ATATTTTATTCTTATCTTAACTTATTACATAAATTATATTCTTAACTTAAATT
1 TTAACTTAAAACATATTTTATTCTTATATTAACTTATTAAATATATTTTATTCTT-TC-T-AACT
* * * *
2187168 ATTAAATATATTCTATTCTTACCTTAAATTATTAAATATAATTAATTATTATT
63 A-AAAATATATTTTATTCTTA-TTTAACTTA--AAA-ATAATTAATTATTATT
* * * * *
2187221 TTAACTTAAAACATATCTTTTATTCTTATTTTAACTTA-AAAATGTA-TTT-TTATTTC-AACAA
1 TTAACTTAAAACATA--TTTTATTCTTATATTAACTTATTAAATATATTTTATTCTTTCTAACTA
*
2187282 AAAATATATTTTATTTTTATCTTAACTATAAAAA
64 AAAATATATTTTATTCTTAT-TTAACT-TAAAAA
2187316 ATATATTATA
Statistics
Matches: 170, Mismatches: 30, Indels: 29
0.74 0.13 0.13
Matches are distributed among these distances:
110 1 0.01
111 3 0.02
112 63 0.37
113 28 0.16
114 9 0.05
115 5 0.03
116 5 0.03
117 27 0.16
118 5 0.03
119 4 0.02
120 20 0.12
ACGTcount: A:0.40, C:0.09, G:0.01, T:0.50
Consensus pattern (110 bp):
TTAACTTAAAACATATTTTATTCTTATATTAACTTATTAAATATATTTTATTCTTTCTAACTAAA
AATATATTTTATTCTTATTTAACTTAAAAATAATTAATTATTATT
Found at i:2187272 original size:30 final size:29
Alignment explanation
Indices: 2186986--2187348 Score: 257
Period size: 30 Copynumber: 12.6 Consensus size: 29
2186976 TTAATTGTAC
*
2186986 ATCTTAACATTAAAAATATATTTTATTTTT
1 ATCTTAAC-TTAAAAATATATTTTATTCTT
* *
2187016 ATATTAACTTATTAAATATATTTTATTCTT
1 ATCTTAACTTA-AAAATATATTTTATTCTT
* * *
2187046 GTCATAACCTAAAAATATATTTTATTCTT
1 ATCTTAACTTAAAAATATATTTTATTCTT
*
2187075 AT-TTAACTT-AAAA-ATA-TTTAGTCTTT
1 ATCTTAACTTAAAAATATATTTTATTC-TT
*
2187101 ATTTTAACTT-AAAA-ATATTTTATTCTT
1 ATCTTAACTTAAAAATATATTTTATTCTT
* * * *
2187128 ATCTTAACTTATTACATAAATTATATTCTT
1 ATCTTAACTTA-AAAATATATTTTATTCTT
* * * *
2187158 AACTTAAATTATTAAATATATTCTATTCTT
1 ATCTTAACTTA-AAAATATATTTTATTCTT
* * * * * *
2187188 ACCTTAAATTATTAAATATAATTAATTATT
1 ATCTTAACTTA-AAAATATATTTTATTCTT
* *
2187218 ATTTTAACTTAAAACATATCTTTTATTCTT
1 ATCTTAACTTAAAA-ATATATTTTATTCTT
* * *
2187248 ATTTTAACTTAAAAATGTA-TTT-TTATT
1 ATCTTAACTTAAAAATATATTTTATTCTT
* *
2187275 -TC--AAC-AAAAAATATATTTTATTTTT
1 ATCTTAACTTAAAAATATATTTTATTCTT
*
2187300 ATCTTAACTATAAAAAATATATTATATT-TGT
1 ATCTTAACT-T-AAAAATATATTTTATTCT-T
* *
2187331 ATCTTAAATTTAAAATAT
1 ATCTTAACTTAAAAATAT
2187349 TATCAGAATA
Statistics
Matches: 269, Mismatches: 47, Indels: 35
0.77 0.13 0.10
Matches are distributed among these distances:
23 8 0.03
24 6 0.02
25 10 0.04
26 10 0.04
27 33 0.12
28 17 0.06
29 35 0.13
30 126 0.47
31 24 0.09
ACGTcount: A:0.40, C:0.09, G:0.01, T:0.50
Consensus pattern (29 bp):
ATCTTAACTTAAAAATATATTTTATTCTT
Found at i:2187273 original size:24 final size:23
Alignment explanation
Indices: 2187241--2187298 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 23
2187231 ACATATCTTT
* * *
2187241 TATTCTTATTTTAACTTAAAAATG
1 TATTTTTATTTTAAC-AAAAAATA
*
2187265 TATTTTTATTTCAACAAAAAATA
1 TATTTTTATTTTAACAAAAAATA
2187288 TA-TTTTATTTT
1 TATTTTTATTTT
2187299 TATCTTAACT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
22 8 0.28
23 8 0.28
24 13 0.45
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (23 bp):
TATTTTTATTTTAACAAAAAATA
Found at i:2187293 original size:172 final size:172
Alignment explanation
Indices: 2186999--2187308 Score: 401
Period size: 172 Copynumber: 1.8 Consensus size: 172
2186989 TTAACATTAA
* * * * * * * *
2186999 AAATATATTTTATTTTTATATTAACTTATTAAATATATTTTATTCTTGTCATAACCTAAAAATAT
1 AAATATATTCTATTCTTACATTAAATTATTAAATATAATTAATTATTATCATAACCTAAAAATAT
* * **
2187064 ATTTTATTCTTATTTAACTTAAAAATATTTAGTCTTTATTTTAACTTAAAAATATTTTATTCTTA
66 ATTTTATTCTTATTTAACTTAAAAATATGTAGTCTTTATTTCAACAAAAAAATATTTTATTCTTA
2187129 TCTTAACTTATTACATAAATTATATTCTTAACTTAAATTATT
131 TCTTAACTTATTACATAAATTATATTCTTAACTTAAATTATT
* ** *
2187171 AAATATATTCTATTCTTACCTTAAATTATTAAATATAATTAATTATTATTTTAACTTAAAACATA
1 AAATATATTCTATTCTTACATTAAATTATTAAATATAATTAATTATTATCATAACCTAAAA-ATA
* * *
2187236 TCTTTTATTCTTATTTTAACTT-AAAA-ATGTA-TTTTTATTTCAACAAAAAATATATTTTATTT
65 TATTTTATTCTTA-TTTAACTTAAAAATATGTAGTCTTTATTTCAACAAAAAA-ATATTTTATTC
2187298 TTATCTTAACT
128 TTATCTTAACT
2187309 ATAAAAAATA
Statistics
Matches: 116, Mismatches: 19, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
171 15 0.13
172 74 0.64
173 19 0.16
174 8 0.07
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.52
Consensus pattern (172 bp):
AAATATATTCTATTCTTACATTAAATTATTAAATATAATTAATTATTATCATAACCTAAAAATAT
ATTTTATTCTTATTTAACTTAAAAATATGTAGTCTTTATTTCAACAAAAAAATATTTTATTCTTA
TCTTAACTTATTACATAAATTATATTCTTAACTTAAATTATT
Found at i:2187345 original size:31 final size:31
Alignment explanation
Indices: 2187280--2187345 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
2187270 TTATTTCAAC
* * *
2187280 AAAAAATATATTTTATTTTTATCTTAACTAT
1 AAAAAATATATTATATTTGTATCTTAAATAT
*
2187311 AAAAAATATATTATATTTGTATCTTAAATTT
1 AAAAAATATATTATATTTGTATCTTAAATAT
2187342 AAAA
1 AAAA
2187346 TATTATCAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (31 bp):
AAAAAATATATTATATTTGTATCTTAAATAT
Found at i:2187426 original size:18 final size:18
Alignment explanation
Indices: 2187405--2187451 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
2187395 AGTAAATATA
2187405 ATATTAAAATATATTTTC
1 ATATTAAAATATATTTTC
2187423 ATATTAAAATATATTTTC
1 ATATTAAAATATATTTTC
*
2187441 AAATTAAAATA
1 ATATTAAAATA
2187452 AGAATAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (18 bp):
ATATTAAAATATATTTTC
Found at i:2187481 original size:27 final size:29
Alignment explanation
Indices: 2187427--2187494 Score: 86
Period size: 27 Copynumber: 2.4 Consensus size: 29
2187417 ATTTTCATAT
2187427 TAAAATATATTTTCAAATTAAAATAAGAA
1 TAAAATATATTTTCAAATTAAAATAAGAA
** * *
2187456 TAAAATATATTTT-AGGTTCAAA-AAGAG
1 TAAAATATATTTTCAAATTAAAATAAGAA
2187483 TAAAATATATTT
1 TAAAATATATTT
2187495 AATAAGTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 16 0.46
28 6 0.17
29 13 0.37
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.37
Consensus pattern (29 bp):
TAAAATATATTTTCAAATTAAAATAAGAA
Found at i:2187506 original size:25 final size:26
Alignment explanation
Indices: 2187478--2187537 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 26
2187468 TAGGTTCAAA
*
2187478 AAGAGTAAAATATATTTAATAA-GTT
1 AAGAGTAAAAAATATTTAATAATGTT
**
2187503 AAGA-TAAAAAATATTTTTTAATGTT
1 AAGAGTAAAAAATATTTAATAATGTT
2187528 AAGATGTAAA
1 AAGA-GTAAA
2187538 GTTAATTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 14 0.48
25 11 0.38
27 4 0.14
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.37
Consensus pattern (26 bp):
AAGAGTAAAAAATATTTAATAATGTT
Found at i:2194867 original size:20 final size:20
Alignment explanation
Indices: 2194842--2194893 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
2194832 ACCCGACGGA
*
2194842 TGCATCGATGCATGGCCTTG
1 TGCATCGATGCATGCCCTTG
2194862 TGCATCGATGCATGCCCTTG
1 TGCATCGATGCATGCCCTTG
2194882 TGCATCGATGCA
1 TGCATCGATGCA
2194894 CATTCAAGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (20 bp):
TGCATCGATGCATGCCCTTG
Found at i:2194973 original size:44 final size:43
Alignment explanation
Indices: 2194885--2194981 Score: 115
Period size: 44 Copynumber: 2.2 Consensus size: 43
2194875 GCCCTTGTGC
* *
2194885 ATCGATGCACATTCAAGGCTTGCATCGGTGCACCTTAATGGTGT
1 ATCGATGCACATTCAAGGCATGCATCGATGCACCTTAA-GGTGT
* * *
2194929 ATTGATGCACATTCAAAGGGATGCATCGATGCACTGTTAA-GTGT
1 ATCGATGCACATTC-AAGGCATGCATCGATGCAC-CTTAAGGTGT
2194973 ATCGATGCA
1 ATCGATGCA
2194982 TGAAGCACAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
44 25 0.56
45 16 0.36
46 4 0.09
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.29
Consensus pattern (43 bp):
ATCGATGCACATTCAAGGCATGCATCGATGCACCTTAAGGTGT
Found at i:2199528 original size:49 final size:49
Alignment explanation
Indices: 2199464--2199559 Score: 149
Period size: 49 Copynumber: 2.0 Consensus size: 49
2199454 AAAATAGCCA
*
2199464 GAGTACATCGATGCATCGC-TGGTGCATCGATGCATCAAATGCATTCGCT
1 GAGTACATCGATGCATAGCAT-GTGCATCGATGCATCAAATGCATTCGCT
* *
2199513 GAGTGCATCGATGCATAGCATGTGCATCGATGCATGAAATGCATTCG
1 GAGTACATCGATGCATAGCATGTGCATCGATGCATCAAATGCATTCG
2199560 ATGTTCAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
49 42 0.98
50 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (49 bp):
GAGTACATCGATGCATAGCATGTGCATCGATGCATCAAATGCATTCGCT
Found at i:2201221 original size:26 final size:29
Alignment explanation
Indices: 2201167--2201225 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
2201157 TGCTGTTTGT
2201167 TGATGATTTCAGATGTTAAATTATGATGA
1 TGATGATTTCAGATGTTAAATTATGATGA
2201196 TGATGATTTCAGATGTTAAATTATGATGA
1 TGATGATTTCAGATGTTAAATTATGATGA
2201225 T
1 T
2201226 TATTTGTAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.03, G:0.20, T:0.42
Consensus pattern (29 bp):
TGATGATTTCAGATGTTAAATTATGATGA
Found at i:2207095 original size:2 final size:2
Alignment explanation
Indices: 2207088--2207115 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2207078 AATACTGTCA
2207088 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
2207116 TTGTACTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2208146 original size:21 final size:21
Alignment explanation
Indices: 2208122--2208167 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
2208112 TGAATACGAG
*
2208122 GAGACATAATATTAATATAAA
1 GAGACACAATATTAATATAAA
* * *
2208143 GAGACACGATGTTAATATGAA
1 GAGACACAATATTAATATAAA
2208164 GAGA
1 GAGA
2208168 TAATTTTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.50, C:0.07, G:0.20, T:0.24
Consensus pattern (21 bp):
GAGACACAATATTAATATAAA
Found at i:2210830 original size:4 final size:4
Alignment explanation
Indices: 2210821--2210846 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
2210811 CTAGTAGATA
2210821 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
2210847 TTTAATTCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:2214828 original size:21 final size:21
Alignment explanation
Indices: 2214776--2214830 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
2214766 TTACACTGAG
2214776 TGTACCGATACACTTTGAAGA
1 TGTACCGATACACTTTGAAGA
**
2214797 TGTACTAATACACTTTGAAGA
1 TGTACCGATACACTTTGAAGA
2214818 TGTACCGATACAC
1 TGTACCGATACAC
2214831 CTACGCTCCC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (21 bp):
TGTACCGATACACTTTGAAGA
Found at i:2222818 original size:20 final size:20
Alignment explanation
Indices: 2222765--2222826 Score: 97
Period size: 20 Copynumber: 3.1 Consensus size: 20
2222755 AGAATAAAGT
* * *
2222765 AAGGGGGAGTAATATTTCAT
1 AAGGGGGAGTAATTTTTTAA
2222785 AAGGGGGAGTAATTTTTTAA
1 AAGGGGGAGTAATTTTTTAA
2222805 AAGGGGGAGTAATTTTTTAA
1 AAGGGGGAGTAATTTTTTAA
2222825 AA
1 AA
2222827 TTCGATTTCA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.37, C:0.02, G:0.29, T:0.32
Consensus pattern (20 bp):
AAGGGGGAGTAATTTTTTAA
Found at i:2226950 original size:21 final size:21
Alignment explanation
Indices: 2226924--2226964 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2226914 ATTTAATATA
2226924 AATAAATACTA-AATAATATTT
1 AATAAA-ACTATAATAATATTT
*
2226945 AATAAAACTATTATAATATT
1 AATAAAACTATAATAATATT
2226965 ATTATAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (21 bp):
AATAAAACTATAATAATATTT
Found at i:2227890 original size:3 final size:3
Alignment explanation
Indices: 2227878--2227953 Score: 58
Period size: 3 Copynumber: 27.7 Consensus size: 3
2227868 GTAATATTTT
* * *
2227878 TAA T-A TAA TAA T-A TAA TAA TAT TAA T-A TAA TAA AAA TAA T-A TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
2227922 TAA T-A TAG TAA T-A TAG TAA TAA T-A TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
2227954 TCAACTCGGA
Statistics
Matches: 56, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
2 14 0.25
3 42 0.75
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:2227891 original size:8 final size:8
Alignment explanation
Indices: 2227878--2227954 Score: 81
Period size: 8 Copynumber: 9.8 Consensus size: 8
2227868 GTAATATTTT
2227878 TAATATAA
1 TAATATAA
2227886 TAATATAA
1 TAATATAA
2227894 TAATAT--
1 TAATATAA
2227900 TAATATAA
1 TAATATAA
2227908 TAA-A-AA
1 TAATATAA
*
2227914 TAATATAG
1 TAATATAA
*
2227922 TAATATAG
1 TAATATAA
2227930 TAATATAGTAA
1 T-A-ATA-TAA
2227941 TAATATAA
1 TAATATAA
2227949 TAATAT
1 TAATAT
2227955 CAACTCGGAC
Statistics
Matches: 60, Mismatches: 2, Indels: 14
0.79 0.03 0.18
Matches are distributed among these distances:
6 11 0.18
7 2 0.03
8 36 0.60
9 4 0.07
10 4 0.07
11 3 0.05
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (8 bp):
TAATATAA
Found at i:2227896 original size:11 final size:11
Alignment explanation
Indices: 2227878--2227953 Score: 63
Period size: 11 Copynumber: 7.2 Consensus size: 11
2227868 GTAATATTTT
2227878 TAATATAATAA
1 TAATATAATAA
*
2227889 T-ATAATAATAT
1 TAAT-ATAATAA
2227900 TAATATAATAA
1 TAATATAATAA
2227911 -AA-ATAAT-A
1 TAATATAATAA
* *
2227919 TAGTA-ATATAG
1 TAATATA-ATAA
*
2227930 TAATATAGTAA
1 TAATATAATAA
2227941 TAATATAATAA
1 TAATATAATAA
2227952 TA
1 TA
2227954 TCAACTCGGA
Statistics
Matches: 50, Mismatches: 8, Indels: 14
0.69 0.11 0.19
Matches are distributed among these distances:
8 1 0.02
9 7 0.14
10 7 0.14
11 32 0.64
12 3 0.06
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (11 bp):
TAATATAATAA
Found at i:2228262 original size:20 final size:20
Alignment explanation
Indices: 2228224--2228263 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2228214 ATCCTACACT
*
2228224 GAGGTTTTACAGATGACCCG
1 GAGGTTTTACAAATGACCCG
*
2228244 GAGGTTTTACAAATTACCCG
1 GAGGTTTTACAAATGACCCG
2228264 AAGGATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (20 bp):
GAGGTTTTACAAATGACCCG
Found at i:2228272 original size:20 final size:20
Alignment explanation
Indices: 2228229--2228272 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
2228219 ACACTGAGGT
* * *
2228229 TTTACAGATGACCCGGAGGT
1 TTTACAAATGACCCGAAGGA
*
2228249 TTTACAAATTACCCGAAGGA
1 TTTACAAATGACCCGAAGGA
2228269 TTTA
1 TTTA
2228273 ATTTTTTAGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (20 bp):
TTTACAAATGACCCGAAGGA
Found at i:2228301 original size:119 final size:119
Alignment explanation
Indices: 2228108--2228377 Score: 443
Period size: 119 Copynumber: 2.3 Consensus size: 119
2228098 ATACCCGAAA
* * * *
2228108 GTTTTACAGATGACCCAAAGGCTTTACAAATCACCTGGAGGATTTAATTTTCTAGAACATTAAAT
1 GTTTTACAGATGACCCAAAGGTTTTACAAATTACCCGAAGGATTTAATTTTCTAGAACATTAAAT
*
2228173 GAGAAACTTTGAAAATCGCTTCCTCATTTTCATGCGAAAACATCCTACAC-TGAG
66 GAGAAACTTTGAAAATCGCTTCCTCATTTTCATGAGAAAACATCCTAC-CTTGAG
** *
2228227 GTTTTACAGATGACCCGGAGGTTTTACAAATTACCCGAAGGATTTAATTTTTTAGAACATTAAAT
1 GTTTTACAGATGACCCAAAGGTTTTACAAATTACCCGAAGGATTTAATTTTCTAGAACATTAAAT
*
2228292 GAGAAACTTTGAAAATCGCTTCCTCATTTTCATGAGAAAACATCTTACCTTGAG
66 GAGAAACTTTGAAAATCGCTTCCTCATTTTCATGAGAAAACATCCTACCTTGAG
2228346 GTTTTACAGATGACCCAAAGGTTTTACAAATT
1 GTTTTACAGATGACCCAAAGGTTTTACAAATT
2228378 CGTGGATATA
Statistics
Matches: 139, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
118 1 0.01
119 138 0.99
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (119 bp):
GTTTTACAGATGACCCAAAGGTTTTACAAATTACCCGAAGGATTTAATTTTCTAGAACATTAAAT
GAGAAACTTTGAAAATCGCTTCCTCATTTTCATGAGAAAACATCCTACCTTGAG
Found at i:2228997 original size:22 final size:22
Alignment explanation
Indices: 2228962--2229038 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
2228952 AATAAAGCTT
*
2228962 TCATCTTTGGAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
2228984 TCATCCTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
2229006 TCATTTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
2229028 TCATCTTTGAA
1 TCATCTTTGAA
2229039 GCATGTAGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:2230320 original size:39 final size:39
Alignment explanation
Indices: 2230243--2230322 Score: 101
Period size: 40 Copynumber: 2.1 Consensus size: 39
2230233 TGTGCGTTTA
* * *
2230243 TTTAATAAATGAACGAACATGAACAAGATTTTGTGTTCG
1 TTTAATAAATGAACGAACATGAACAAGAGTCTGCGTTCG
2230282 TTTAATTAAATGAACGAACATGAACATAG-GTCT-CGTTCG
1 TTTAA-TAAATGAACGAACATGAACA-AGAGTCTGCGTTCG
2230321 TT
1 TT
2230323 CATTTACGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
39 12 0.33
40 22 0.61
41 2 0.06
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.34
Consensus pattern (39 bp):
TTTAATAAATGAACGAACATGAACAAGAGTCTGCGTTCG
Found at i:2230365 original size:24 final size:24
Alignment explanation
Indices: 2230338--2230400 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
2230328 ACGTTCGTGA
*
2230338 ATGTTTGGTTATGTTAGTTCGGTT
1 ATGTTCGGTTATGTTAGTTCGGTT
* *
2230362 ATGTTCGTTTATGTTCGTTCGGTT
1 ATGTTCGGTTATGTTAGTTCGGTT
**
2230386 ATGTTCATTTATGTT
1 ATGTTCGGTTATGTT
2230401 CATTCATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.13, C:0.08, G:0.24, T:0.56
Consensus pattern (24 bp):
ATGTTCGGTTATGTTAGTTCGGTT
Found at i:2230391 original size:14 final size:14
Alignment explanation
Indices: 2230344--2230391 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
2230334 GTGAATGTTT
*
2230344 GGTTATGTTAGTTC
1 GGTTATGTTCGTTC
2230358 GGTTATGTTCG-T-
1 GGTTATGTTCGTTC
2230370 --TTATGTTCGTTC
1 GGTTATGTTCGTTC
2230382 GGTTATGTTC
1 GGTTATGTTC
2230392 ATTTATGTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
10 9 0.31
11 1 0.03
13 1 0.03
14 18 0.62
ACGTcount: A:0.10, C:0.10, G:0.27, T:0.52
Consensus pattern (14 bp):
GGTTATGTTCGTTC
Found at i:2230401 original size:24 final size:24
Alignment explanation
Indices: 2230346--2230416 Score: 97
Period size: 24 Copynumber: 3.0 Consensus size: 24
2230336 GAATGTTTGG
* *
2230346 TTATGTTAGTTCGGTTATGTTCGT
1 TTATGTTCGTTCGGTTATGTTCAT
2230370 TTATGTTCGTTCGGTTATGTTCAT
1 TTATGTTCGTTCGGTTATGTTCAT
* **
2230394 TTATGTTCATTCATTTATGTTCA
1 TTATGTTCGTTCGGTTATGTTCA
2230417 ACCCAATCTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.15, C:0.11, G:0.18, T:0.55
Consensus pattern (24 bp):
TTATGTTCGTTCGGTTATGTTCAT
Found at i:2230406 original size:14 final size:14
Alignment explanation
Indices: 2230389--2230416 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2230379 TTCGGTTATG
2230389 TTCATTTATGTTCA
1 TTCATTTATGTTCA
2230403 TTCATTTATGTTCA
1 TTCATTTATGTTCA
2230417 ACCCAATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCATTTATGTTCA
Found at i:2231281 original size:12 final size:12
Alignment explanation
Indices: 2231264--2231305 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
2231254 TGGGGCAATG
2231264 TCGAGCTCGGAA
1 TCGAGCTCGGAA
*
2231276 TCGAGCT-TGAA
1 TCGAGCTCGGAA
2231287 TCGAGCTCGGAA
1 TCGAGCTCGGAA
2231299 TCGAGCT
1 TCGAGCT
2231306 TGAATCAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 10 0.37
12 17 0.63
ACGTcount: A:0.24, C:0.24, G:0.31, T:0.21
Consensus pattern (12 bp):
TCGAGCTCGGAA
Found at i:2231289 original size:11 final size:11
Alignment explanation
Indices: 2231273--2231311 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
2231263 GTCGAGCTCG
2231273 GAATCGAGCTT
1 GAATCGAGCTT
*
2231284 GAATCGAGCTCG
1 GAATCGAGCT-T
2231296 GAATCGAGCTT
1 GAATCGAGCTT
2231307 GAATC
1 GAATC
2231312 AAGATCTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (11 bp):
GAATCGAGCTT
Found at i:2231294 original size:23 final size:23
Alignment explanation
Indices: 2231264--2231311 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
2231254 TGGGGCAATG
2231264 TCGAGCTCGGAATCGAGCTTGAA
1 TCGAGCTCGGAATCGAGCTTGAA
2231287 TCGAGCTCGGAATCGAGCTTGAA
1 TCGAGCTCGGAATCGAGCTTGAA
2231310 TC
1 TC
2231312 AAGATCTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (23 bp):
TCGAGCTCGGAATCGAGCTTGAA
Found at i:2231537 original size:16 final size:16
Alignment explanation
Indices: 2231512--2231576 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
2231502 CCAACGTTTA
2231512 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
2231528 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
*
2231544 TGTTTGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
2231560 TGCTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
2231576 T
1 T
2231577 TTATTTATTA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.08, C:0.12, G:0.23, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:2231670 original size:16 final size:16
Alignment explanation
Indices: 2231646--2231676 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2231636 AAAAATATTT
2231646 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
2231662 TGTTTGTTTATGTTC
1 TGTTCGTTTATGTTC
2231677 ATTTATTTAT
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:0.06, C:0.10, G:0.23, T:0.61
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:2237079 original size:21 final size:21
Alignment explanation
Indices: 2237053--2237093 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2237043 ATTTAATATA
2237053 AATAAATACTA-AATAATATTT
1 AATAAA-ACTATAATAATATTT
*
2237074 AATAAAACTATTATAATATT
1 AATAAAACTATAATAATATT
2237094 ATATTATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (21 bp):
AATAAAACTATAATAATATTT
Found at i:2237171 original size:30 final size:29
Alignment explanation
Indices: 2237113--2237171 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
2237103 TCACATAAAT
*
2237113 TAAATTATAAATTATGTAAAATAATAATCC
1 TAAAGTATAAATTA-GTAAAATAATAATCC
2237143 TAAAGTATAAATTA-TAATAATAATTAATC
1 TAAAGTATAAATTAGTAA-AATAA-TAATC
2237172 AATGATTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 3 0.12
29 5 0.19
30 18 0.69
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.37
Consensus pattern (29 bp):
TAAAGTATAAATTAGTAAAATAATAATCC
Found at i:2238117 original size:3 final size:3
Alignment explanation
Indices: 2238098--2238180 Score: 68
Period size: 3 Copynumber: 28.7 Consensus size: 3
2238088 GTAATATTTG
* * *
2238098 TAA T-A TAA TATA TAA TAA TAT TAA TATA TAA GAA TAA T-A TAG TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
* *
2238143 T-A TAG TAA TAA T-A TAA TAA TAG TAA TAA T-A TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
2238181 TCAACTCGGA
Statistics
Matches: 63, Mismatches: 10, Indels: 14
0.72 0.11 0.16
Matches are distributed among these distances:
2 10 0.16
3 47 0.75
4 6 0.10
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:2238126 original size:8 final size:7
Alignment explanation
Indices: 2238100--2238181 Score: 71
Period size: 8 Copynumber: 11.3 Consensus size: 7
2238090 AATATTTGTA
2238100 ATATAAT
1 ATATAAT
2238107 ATATAAT
1 ATATAAT
2238114 AATATTAAT
1 -ATA-TAAT
*
2238123 ATATAAG
1 ATATAAT
2238130 A-ATAAT
1 ATATAAT
2238136 ATAGTAAT
1 ATA-TAAT
2238144 ATAGTAAT
1 ATA-TAAT
2238152 AATATAAT
1 -ATATAAT
*
2238160 A-ATAGT
1 ATATAAT
2238166 A-ATAAT
1 ATATAAT
2238172 ATAATAAT
1 AT-ATAAT
2238180 AT
1 AT
2238182 CAACTCGGAC
Statistics
Matches: 64, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
6 15 0.23
7 13 0.20
8 29 0.45
9 7 0.11
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (7 bp):
ATATAAT
Found at i:2238135 original size:19 final size:18
Alignment explanation
Indices: 2238098--2238180 Score: 95
Period size: 19 Copynumber: 4.7 Consensus size: 18
2238088 GTAATATTTG
2238098 TAATATAAT-AT-A-TAA
1 TAATATAATAATAAGTAA
2238113 TAATATTAATATATAAG-AA
1 TAATA-TAATA-ATAAGTAA
*
2238132 TAATATAGTAATATAGTAA
1 TAATATAATAATA-AGTAA
2238151 TAATATAATAAT-AGTAA
1 TAATATAATAATAAGTAA
2238168 TAATATAATAATA
1 TAATATAATAATA
2238181 TCAACTCGGA
Statistics
Matches: 58, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
15 5 0.09
16 4 0.07
17 20 0.34
18 8 0.14
19 21 0.36
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (18 bp):
TAATATAATAATAAGTAA
Found at i:2239803 original size:2 final size:2
Alignment explanation
Indices: 2239796--2239820 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2239786 ATGGCTTATT
2239796 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 T
2239821 TTTGATGGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2240417 original size:60 final size:59
Alignment explanation
Indices: 2240309--2240432 Score: 187
Period size: 60 Copynumber: 2.1 Consensus size: 59
2240299 TGATGCTCAT
*
2240309 AAACTATGACTCCCATATTAAATTGGTCCTAAACTTTAAAATGTTTTAT-ATAGGTCCTC
1 AAACTATGACTCCCATATTAAATTGGTCCTAAACTCTAAAATGTTTTATAATA-GTCCTC
* * *
2240368 AAACTATGGCTCCCATTTTAAATTAGTTCCTAAACTCTAAAATGTTTTATAATAGTCCTC
1 AAACTATGACTCCCATATTAAATT-GGTCCTAAACTCTAAAATGTTTTATAATAGTCCTC
2240428 AAACT
1 AAACT
2240433 TTCAGTTACA
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
59 22 0.37
60 34 0.58
61 3 0.05
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (59 bp):
AAACTATGACTCCCATATTAAATTGGTCCTAAACTCTAAAATGTTTTATAATAGTCCTC
Found at i:2241152 original size:44 final size:43
Alignment explanation
Indices: 2241102--2241324 Score: 154
Period size: 43 Copynumber: 5.2 Consensus size: 43
2241092 AAATTTGATT
* *
2241102 AAATTAGG-GACCTGAATTATAAAAGTAAAAAGTAAGAGTAAAAA
1 AAATTAGGAG-CCTCAATTATAAAAGTAAAAAGTAAGA-TTAAAA
* * *
2241146 AAATTAGGAGCCACAATTACAAAGGTAAAAAGTTAA-ATTAAAA
1 AAATTAGGAGCCTCAATTATAAAAGTAAAAAG-TAAGATTAAAA
* * * *
2241189 AAATTAGGAGTCTCAACTAT-AAAGATAGAAAGTAAGATTGAAA
1 AAATTAGGAGCCTCAATTATAAAAG-TAAAAAGTAAGATTAAAA
* * * *
2241232 TAATTAGG-GACTTCAATTATAAATGTAAAAAGT-AGAATT-GAA
1 AAATTAGGAG-CCTCAATTATAAAAGTAAAAAGTAAG-ATTAAAA
* * * ** * *
2241274 AAATTA-AATGCTTCAATTGTAAGGGTAAAAAGTGAGATTACAA
1 AAATTAGGA-GCCTCAATTATAAAAGTAAAAAGTAAGATTAAAA
2241317 AAATTAGG
1 AAATTAGG
2241325 GACCTTAAAT
Statistics
Matches: 141, Mismatches: 26, Indels: 24
0.74 0.14 0.13
Matches are distributed among these distances:
42 39 0.28
43 68 0.48
44 30 0.21
45 4 0.03
ACGTcount: A:0.52, C:0.06, G:0.17, T:0.25
Consensus pattern (43 bp):
AAATTAGGAGCCTCAATTATAAAAGTAAAAAGTAAGATTAAAA
Found at i:2242741 original size:28 final size:28
Alignment explanation
Indices: 2242710--2242764 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
2242700 AATTTTTTAA
2242710 TAAATTT-TTTTATATATG-TATAAAATTT
1 TAAATTTATTTTA-A-ATGATATAAAATTT
2242738 TAAATTTATTTTAAATGATATAAAATT
1 TAAATTTATTTTAAATGATATAAAATT
2242765 ATTTATCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 3 0.12
28 17 0.68
29 5 0.20
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (28 bp):
TAAATTTATTTTAAATGATATAAAATTT
Found at i:2243152 original size:20 final size:20
Alignment explanation
Indices: 2243129--2243218 Score: 128
Period size: 20 Copynumber: 4.5 Consensus size: 20
2243119 ACAGGTTCCA
* *
2243129 AAATCGCAACGATAATTTGT
1 AAATCGCAACGAGAATATGT
2243149 AAATCGCAACGCA-AATATGT
1 AAATCGCAACG-AGAATATGT
*
2243169 AAATCGCAACGCGAATATGT
1 AAATCGCAACGAGAATATGT
*
2243189 AAATCGCAACGCGAATATGT
1 AAATCGCAACGAGAATATGT
2243209 AAATCGCAAC
1 AAATCGCAAC
2243219 ACATAAGTCA
Statistics
Matches: 66, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
20 65 0.98
21 1 0.02
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (20 bp):
AAATCGCAACGAGAATATGT
Found at i:2243173 original size:40 final size:40
Alignment explanation
Indices: 2243129--2243218 Score: 144
Period size: 40 Copynumber: 2.2 Consensus size: 40
2243119 ACAGGTTCCA
* *
2243129 AAATCGCAACGATAATTTGTAAATCGCAACGCAAATATGT
1 AAATCGCAACGAGAATATGTAAATCGCAACGCAAATATGT
* *
2243169 AAATCGCAACGCGAATATGTAAATCGCAACGCGAATATGT
1 AAATCGCAACGAGAATATGTAAATCGCAACGCAAATATGT
2243209 AAATCGCAAC
1 AAATCGCAAC
2243219 ACATAAGTCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (40 bp):
AAATCGCAACGAGAATATGTAAATCGCAACGCAAATATGT
Found at i:2243236 original size:40 final size:39
Alignment explanation
Indices: 2243129--2243237 Score: 121
Period size: 40 Copynumber: 2.7 Consensus size: 39
2243119 ACAGGTTCCA
* **
2243129 AAATCGCAACGATAATTTGTAAATCGCAACGCAAATATGT
1 AAATCGCAAC-ACAATAAGTAAATCGCAACGCAAATATGT
* * *
2243169 AAATCGCAACGCGAATATGTAAATCGCAACGCGAATATGT
1 AAATCGCAACAC-AATAAGTAAATCGCAACGCAAATATGT
2243209 AAATCGCAACAC-ATAAGTCAAATTCGCAA
1 AAATCGCAACACAATAAGT-AAA-TCGCAA
2243238 TGCTAATTAC
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
38 5 0.08
39 3 0.05
40 52 0.87
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.21
Consensus pattern (39 bp):
AAATCGCAACACAATAAGTAAATCGCAACGCAAATATGT
Found at i:2243423 original size:20 final size:20
Alignment explanation
Indices: 2243398--2243435 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2243388 GAAGAATTCG
2243398 CGTTGCGATTTACATATTAT
1 CGTTGCGATTTACATATTAT
*
2243418 CGTTGCGATTTACCTATT
1 CGTTGCGATTTACATATT
2243436 CGCAACGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.18, G:0.16, T:0.45
Consensus pattern (20 bp):
CGTTGCGATTTACATATTAT
Found at i:2243459 original size:146 final size:146
Alignment explanation
Indices: 2243288--2243584 Score: 504
Period size: 146 Copynumber: 2.0 Consensus size: 146
2243278 GATTTTCGTT
* **
2243288 TTCGCAATGCGATTCTCCAAAATCGCAACGCGAATTTCATTTTCGCAATGCTAATTACCTATATC
1 TTCGCAACGCGATTCTCCAAAATCGCAACGCGAATTTCATTTTCGCAACACTAATTACCTATATC
2243353 GGTAATTAGCGTTGCGAAATTCGAGTTGCGAATTTGAAGAATTCGCGTTGCGATTTACATATTAT
66 GGTAATTAGCGTTGCGAAATTCGAGTTGCGAATTTGAAGAATTCGCGTTGCGATTTACATATTAT
*
2243418 CGTTGCGATTTACCTA
131 CGTTGCAATTTACCTA
* *
2243434 TTCGCAACGCGATTCTCCAAAATCGCAACGCGTATTTCATTTTCGCAACACTAATTACTTATATC
1 TTCGCAACGCGATTCTCCAAAATCGCAACGCGAATTTCATTTTCGCAACACTAATTACCTATATC
* * **
2243499 GGTATTTAGCGTTGCGAAATTCGAGTTGCGAATTTGGAGAATTCGCGTTTTGATTTACATATTAT
66 GGTAATTAGCGTTGCGAAATTCGAGTTGCGAATTTGAAGAATTCGCGTTGCGATTTACATATTAT
2243564 CGTTGCAATTTACCTA
131 CGTTGCAATTTACCTA
2243580 TTCGC
1 TTCGC
2243585 GTTGTGAATT
Statistics
Matches: 141, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
146 141 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (146 bp):
TTCGCAACGCGATTCTCCAAAATCGCAACGCGAATTTCATTTTCGCAACACTAATTACCTATATC
GGTAATTAGCGTTGCGAAATTCGAGTTGCGAATTTGAAGAATTCGCGTTGCGATTTACATATTAT
CGTTGCAATTTACCTA
Found at i:2243574 original size:20 final size:20
Alignment explanation
Indices: 2243551--2243615 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
2243541 TCGCGTTTTG
2243551 ATTTACATATTATCGTTGCA
1 ATTTACATATTATCGTTGCA
* ** *
2243571 ATTTACCTATTCGCGTTGTGA
1 ATTTACATATTATCGTTG-CA
2243592 A-TTACATATTATCGTTGCA
1 ATTTACATATTATCGTTGCA
2243611 ATTTA
1 ATTTA
2243616 ACTATTCGCG
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
19 2 0.06
20 31 0.89
21 2 0.06
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (20 bp):
ATTTACATATTATCGTTGCA
Found at i:2243583 original size:40 final size:40
Alignment explanation
Indices: 2243539--2243634 Score: 156
Period size: 40 Copynumber: 2.4 Consensus size: 40
2243529 AATTTGGAGA
* * *
2243539 ATTCGCGTTTTGATTTACATATTATCGTTGCAATTTACCT
1 ATTCGCGTTGTGAATTACATATTATCGTTGCAATTTAACT
2243579 ATTCGCGTTGTGAATTACATATTATCGTTGCAATTTAACT
1 ATTCGCGTTGTGAATTACATATTATCGTTGCAATTTAACT
*
2243619 ATTCGCGTTGCGAATT
1 ATTCGCGTTGTGAATT
2243635 TGACCTTTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.24, C:0.17, G:0.16, T:0.44
Consensus pattern (40 bp):
ATTCGCGTTGTGAATTACATATTATCGTTGCAATTTAACT
Found at i:2243621 original size:20 final size:20
Alignment explanation
Indices: 2243558--2243635 Score: 61
Period size: 20 Copynumber: 3.9 Consensus size: 20
2243548 TTGATTTACA
* *
2243558 TATTATCGTTGCAATTTACC
1 TATTAGCGTTGCAATTTAAC
* *
2243578 TATTCGCGTTGTGAA-TT-AC
1 TATTAGCGTTG-CAATTTAAC
*
2243597 ATATTATCGTTGCAATTTAAC
1 -TATTAGCGTTGCAATTTAAC
*
2243618 TATTCGCGTTGCGAATTT
1 TATTAGCGTTGC-AATTT
2243636 GACCTTTTTT
Statistics
Matches: 44, Mismatches: 9, Indels: 9
0.71 0.15 0.15
Matches are distributed among these distances:
19 3 0.07
20 32 0.73
21 9 0.20
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.44
Consensus pattern (20 bp):
TATTAGCGTTGCAATTTAAC
Found at i:2245616 original size:20 final size:20
Alignment explanation
Indices: 2245580--2245617 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2245570 GACGACTCTT
*
2245580 TTGCGAATTTGACTTTCGTG
1 TTGCGAATTTCACTTTCGTG
*
2245600 TTGCGAATTTCATTTTCG
1 TTGCGAATTTCACTTTCG
2245618 CAACGCGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.16, G:0.21, T:0.47
Consensus pattern (20 bp):
TTGCGAATTTCACTTTCGTG
Found at i:2245625 original size:20 final size:19
Alignment explanation
Indices: 2245606--2245662 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 19
2245596 CGTGTTGCGA
2245606 ATTTCATTTTCGCAACGCG
1 ATTTCATTTTCGCAACGCG
***
2245625 ATTCTCCAAAATCGCAACGCGG
1 ATT-T-CATTTTCGCAACGC-G
2245647 ATTTCATTTTCGCAAC
1 ATTTCATTTTCGCAAC
2245663 ACTAATTACC
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
19 3 0.10
20 10 0.34
21 12 0.41
22 4 0.14
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.32
Consensus pattern (19 bp):
ATTTCATTTTCGCAACGCG
Found at i:2245742 original size:21 final size:21
Alignment explanation
Indices: 2245695--2245766 Score: 99
Period size: 21 Copynumber: 3.4 Consensus size: 21
2245685 TGGCATTGCA
* * **
2245695 AAATTCGAGTTGCGAATTTGG
1 AAATTCGCGTTGCGATTTTCC
2245716 AGAATTCGCGTTGCGATTTTCC
1 A-AATTCGCGTTGCGATTTTCC
2245738 AAATTCGCGTTGCGATTTTCC
1 AAATTCGCGTTGCGATTTTCC
2245759 AAATTCGC
1 AAATTCGC
2245767 AACGCAAATT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
21 29 0.63
22 17 0.37
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (21 bp):
AAATTCGCGTTGCGATTTTCC
Found at i:2245801 original size:41 final size:41
Alignment explanation
Indices: 2245749--2245832 Score: 107
Period size: 41 Copynumber: 2.0 Consensus size: 41
2245739 AATTCGCGTT
* *
2245749 GCGATTTTCC-AAATTCGCAACGCAAATTTCGTTTTCGGAAC
1 GCGATTCTCCAAAATT-GCAACGCAAATTTCGTTTTCGCAAC
* * *
2245790 GCGATTCTCCAAAATTGTAATGCGAATTTCGTTTTCGCAAC
1 GCGATTCTCCAAAATTGCAACGCAAATTTCGTTTTCGCAAC
2245831 GC
1 GC
2245833 TAATTACCGA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 32 0.86
42 5 0.14
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (41 bp):
GCGATTCTCCAAAATTGCAACGCAAATTTCGTTTTCGCAAC
Found at i:2245898 original size:104 final size:104
Alignment explanation
Indices: 2245782--2245982 Score: 296
Period size: 104 Copynumber: 1.9 Consensus size: 104
2245772 AAATTTCGTT
* * * *
2245782 TTCGGAACGCGATTCTCCAAAATTGTAATGCGAATTTCGTTTTCGCAACGCTAATTACCGATAT-
1 TTCGCAACGCGATTCTCCAAAATCGCAATGCGAATTTCGTTATCGCAACGCTAATTACCGATATC
* *
2245846 AGGTAATTAGCGTTGCGAAATTCAAGTTGCGAAAACGAAA
66 A-GTAATTAACGTTGCAAAATTCAAGTTGCGAAAACGAAA
*
2245886 TTCGCAACGCGATTCTCCAAAATCGCAATGCGAATTTCGTTATCGCAACGCTAATTACCTATATC
1 TTCGCAACGCGATTCTCCAAAATCGCAATGCGAATTTCGTTATCGCAACGCTAATTACCGATATC
* **
2245951 AGTAATTAATGTTGCAAAATTTGAGTTGCGAA
66 AGTAATTAACGTTGCAAAATTCAAGTTGCGAA
2245983 TTTGGAGAAT
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
104 85 0.99
105 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.30
Consensus pattern (104 bp):
TTCGCAACGCGATTCTCCAAAATCGCAATGCGAATTTCGTTATCGCAACGCTAATTACCGATATC
AGTAATTAACGTTGCAAAATTCAAGTTGCGAAAACGAAA
Found at i:2246075 original size:20 final size:20
Alignment explanation
Indices: 2246050--2246103 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
2246040 ATTTGGAAAA
*
2246050 TCGCAACGTAAATTTCGTTT
1 TCGCAACGCAAATTTCGTTT
*
2246070 TCGCAACGCGAATTTCGTTT
1 TCGCAACGCAAATTTCGTTT
* *
2246090 TTGCAACGCTAATT
1 TCGCAACGCAAATT
2246104 ACCTATATCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (20 bp):
TCGCAACGCAAATTTCGTTT
Found at i:2246250 original size:20 final size:20
Alignment explanation
Indices: 2246171--2246248 Score: 70
Period size: 20 Copynumber: 3.9 Consensus size: 20
2246161 TGTGATTTAC
*
2246171 CTATTCGCGTTGCGAATT-A
1 CTATTCGCGTTGCGATTTGA
** * *
2246190 CGTATTATCATTGCGATTTAA
1 C-TATTCGCGTTGCGATTTGA
*
2246211 CTATTCGCGTTACGAATTTGA
1 CTATTCGCGTTGCG-ATTTGA
2246232 CT-TTCGCGTTGCGATTT
1 CTATTCGCGTTGCGATTT
2246249 TGGGACTTGT
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
19 5 0.11
20 32 0.70
21 9 0.20
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (20 bp):
CTATTCGCGTTGCGATTTGA
Found at i:2255045 original size:131 final size:132
Alignment explanation
Indices: 2254721--2255079 Score: 461
Period size: 132 Copynumber: 2.7 Consensus size: 132
2254711 AGAGAAAATG
* * * * * *
2254721 ATAATATTTAATTATTTTCAA-CAGAGAATAAATGACATCTCATGCCTTAAAGCGGCCAATTATT
1 ATAATATCTAATTATTTACAATCA-AGAATAAATGACCTCTCATGCCTTAAAGCAGTCATTTATT
* * * * *
2254785 ACTCCAATCGAAAGGAAGAGATATCACTATTTCTTCTTAAAATTCAATATTGATTCGAGAGAAAA
65 ACTCCAACCGAAATGAAAAGATATCACTATTTCGTCTTAAAAATCAATATTGATTCGAGAGAAAA
*
2254850 ACG
130 ACA
* ** *
2254853 GTAATATCTAATTATTTACAATTGAGAATAATTGACCTCTCATGCCTTAAAGCAGTCATTTATTA
1 ATAATATCTAATTATTTACAATCAAGAATAAATGACCTCTCATGCCTTAAAGCAGTCATTTATTA
* * *
2254918 CACCAACCGAAATGAAAAGATATCATTATTTCGTCTTAAAAATCAATATTGATTCGAGA-CAAAA
66 CTCCAACCGAAATGAAAAGATATCACTATTTCGTCTTAAAAATCAATATTGATTCGAGAGAAAAA
2254982 CA
131 CA
* * * *
2254984 ATAATATCTAATTATTTCCAATCAAGAATAAATGACCTTTCATACCTTAAATCAGTCATTTATTA
1 ATAATATCTAATTATTTACAATCAAGAATAAATGACCTCTCATGCCTTAAAGCAGTCATTTATTA
* * *
2255049 CTCTAACCGAAATGAAAAAATATTACTATTT
66 CTCCAACCGAAATGAAAAGATATCACTATTT
2255080 TCAATATCGA
Statistics
Matches: 194, Mismatches: 32, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
131 88 0.45
132 106 0.55
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (132 bp):
ATAATATCTAATTATTTACAATCAAGAATAAATGACCTCTCATGCCTTAAAGCAGTCATTTATTA
CTCCAACCGAAATGAAAAGATATCACTATTTCGTCTTAAAAATCAATATTGATTCGAGAGAAAAA
CA
Found at i:2262678 original size:40 final size:40
Alignment explanation
Indices: 2262634--2262907 Score: 167
Period size: 40 Copynumber: 6.8 Consensus size: 40
2262624 ATACAACAAA
* *
2262634 GGTGATGTATTACACGGGATGCACACCTAAATATGAGAGT
1 GGTGATGTATTACACGGGATACACACCTAAATATAAGAGT
* *
2262674 GGTGATGTATTGA-ATGGGATACACATCTAAATATAAGAGT
1 GGTGATGTATT-ACACGGGATACACACCTAAATATAAGAGT
* * * ** * * **
2262714 GGTGATGTATTGCACGAGACACACACCCGAATACAATAAA
1 GGTGATGTATTACACGGGATACACACCTAAATATAAGAGT
* * * *
2262754 CGTGATGTATTACATGGGATACGCACCTAAATATGAGA-T
1 GGTGATGTATTACACGGGATACACACCTAAATATAAGAGT
* * ** * * * **
2262793 CGATGATGTATTCCACATGATACACACCCAAATACAATAAA
1 -GGTGATGTATTACACGGGATACACACCTAAATATAAGAGT
* * ** * * * **
2262834 GGTGATTTATTGCACATGATACATACCTAAATACAATAAA
1 GGTGATGTATTACACGGGATACACACCTAAATATAAGAGT
* *
2262874 GGTGATATA-TAGCACGAGATACACACCTAAATAT
1 GGTGATGTATTA-CACGGGATACACACCTAAATAT
2262908 GAAAGTAATA
Statistics
Matches: 179, Mismatches: 50, Indels: 10
0.75 0.21 0.04
Matches are distributed among these distances:
39 1 0.01
40 177 0.99
41 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (40 bp):
GGTGATGTATTACACGGGATACACACCTAAATATAAGAGT
Found at i:2262759 original size:80 final size:81
Alignment explanation
Indices: 2262675--2262866 Score: 225
Period size: 80 Copynumber: 2.4 Consensus size: 81
2262665 TATGAGAGTG
* * *
2262675 GTGATGTATTGA-ATGGGATACACATCTAAATATAAGAGT-GGTGATGTATTGCACGA-GACACA
1 GTGATGTATTGACATGGGATACACACCTAAATATAAGA-TCGATGATGTATTCCAC-ATGACACA
*
2262737 CACCCGAATACAATAAAC
64 CACCCAAATACAATAAAC
* * *
2262755 GTGATGTATT-ACATGGGATACGCACCTAAATATGAGATCGATGATGTATTCCACATGATACACA
1 GTGATGTATTGACATGGGATACACACCTAAATATAAGATCGATGATGTATTCCACATGACACACA
*
2262819 CCCAAATACAATAAAG
66 CCCAAATACAATAAAC
* *
2262835 GTGATTTATTGCACAT--GATACATACCTAAATA
1 GTGATGTATTG-ACATGGGATACACACCTAAATA
2262867 CAATAAAGGT
Statistics
Matches: 96, Mismatches: 11, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
79 3 0.03
80 89 0.93
82 4 0.04
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (81 bp):
GTGATGTATTGACATGGGATACACACCTAAATATAAGATCGATGATGTATTCCACATGACACACA
CCCAAATACAATAAAC
Found at i:2262838 original size:120 final size:119
Alignment explanation
Indices: 2262622--2262948 Score: 322
Period size: 120 Copynumber: 2.7 Consensus size: 119
2262612 ATTGATACCT
* * * *
2262622 AAATACAACAAAGGTGATGTATTACACGGGATGCACACCTAAATATGAGAGTGGTGATGTATTGA
1 AAATACAATAAAGGTGATGTATTACACGGGATACACACCTAAATATGAGAGTGATGATGTATTCA
* * * **
2262687 ATGGGATACACATCTAAATATAAGAGTGGTGATGTATTGCACGA-GACACACACCC
66 AT-GGATACACACCCAAATACAAGAAAGGTGATGTATTGCAC-ATGACACACACCC
* * * *
2262742 GAATACAATAAACGTGATGTATTACATGGGATACGCACCTAAATATGAGA-TCGATGATGTATTC
1 AAATACAATAAAGGTGATGTATTACACGGGATACACACCTAAATATGAGAGT-GATGATGTATT-
* * * * *
2262806 CACAT-GATACACACCCAAATACAATAAAGGTGATTTATTGCACATGATACATACCT
64 CA-ATGGATACACACCCAAATACAAGAAAGGTGATGTATTGCACATGACACACACCC
* * * *
2262862 AAATACAATAAAGGTGATATA-TAGCACGAGATACACACCTAAATATGAAAGTAAT-ATGTATTG
1 AAATACAATAAAGGTGATGTATTA-CACGGGATACACACCTAAATATGAGAGTGATGATGTATT-
* ** *
2262925 TACGGGATGCACACCCAAATACAA
64 CAATGGATACACACCCAAATACAA
2262949 TTATGATGAT
Statistics
Matches: 169, Mismatches: 31, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
119 30 0.18
120 135 0.80
121 2 0.01
122 2 0.01
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (119 bp):
AAATACAATAAAGGTGATGTATTACACGGGATACACACCTAAATATGAGAGTGATGATGTATTCA
ATGGATACACACCCAAATACAAGAAAGGTGATGTATTGCACATGACACACACCC
Found at i:2265699 original size:49 final size:48
Alignment explanation
Indices: 2265637--2265732 Score: 122
Period size: 49 Copynumber: 2.0 Consensus size: 48
2265627 CATCGTTATT
* * *
2265637 CATCTAATATGCATTAGTGGCACATTTCTGCCAAAAATGCACTGTTAGG
1 CATCTAATATGCATTAATGACACATTTCTGCCAAAAA-GCACAGTTAGG
* *
2265686 CATCTAACT-TGCATTAATGACACCTTTCTGCCAATAAGCACAGTTAG
1 CATCTAA-TATGCATTAATGACACATTTCTGCCAAAAAGCACAGTTAG
2265733 ACATTTATTC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
48 9 0.22
49 31 0.76
50 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (48 bp):
CATCTAATATGCATTAATGACACATTTCTGCCAAAAAGCACAGTTAGG
Found at i:2266720 original size:55 final size:55
Alignment explanation
Indices: 2265972--2266742 Score: 1095
Period size: 55 Copynumber: 14.1 Consensus size: 55
2265962 GCACACCTAA
* * * * * *
2265972 TGCCAATACAGAAATTCATAATCTCATTATGAATTACTTAG-GTTGCACACACAG
1 TGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAG
* *
2266026 TTCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACACAG
1 TGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTG--CACACACAG
* * *
2266083 TGCCCATACGGAAATTCATAAACTCATTACGAATTTCTTAATTTTGCACACACAG
1 TGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAG
* *
2266138 TTCCCATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAG
1 TGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAG
* * * *
2266193 TGCCTATACGGAAATTCATAAACTTATTTTGAATTT-TTAGTTTTGAACATACAG
1 TGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAG
* *
2266247 TGCCCATACAGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAA
1 TGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAG
** * *
2266302 TGCCCATACATAAATTCATAAACTTATTATGAATTTCTTAGTTTTGTACATACAG
1 TGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAG
* * *
2266357 CT-CCCATAAGAAAATTCATAAACTTATTATGAATTTCTTAGTTTT--TCACACAG
1 -TGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAG
* * * * *
2266410 TGCTCATACGAAAATTCATAAACTTATTATGAATTTATTAGTTTTGCACATACGG
1 TGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAG
2266465 TGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAG
1 TGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAG
* * *
2266520 TGCCTATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTCACACACAA
1 TGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAG
* * *
2266575 TGCTCATATGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACATAG
1 TGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAG
*
2266630 TGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACATACAG
1 TGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAG
** * *
2266685 TGCCCATATAGAAATTCATAAACTTATTATGAATTTCTTAG-TTTGCACATATAG
1 TGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAG
2266739 TGCC
1 TGCC
2266743 ATTCGGTAAT
Statistics
Matches: 645, Mismatches: 64, Indels: 16
0.89 0.09 0.02
Matches are distributed among these distances:
52 1 0.00
53 46 0.07
54 101 0.16
55 446 0.69
56 1 0.00
57 50 0.08
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.36
Consensus pattern (55 bp):
TGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAG
Found at i:2266870 original size:48 final size:48
Alignment explanation
Indices: 2266818--2266930 Score: 181
Period size: 48 Copynumber: 2.4 Consensus size: 48
2266808 TAATAAATTC
*
2266818 ACTCACCTGGCTTGCCTCGCTATTATATCCCTAAACGCAAATCTGATT
1 ACTCACCTAGCTTGCCTCGCTATTATATCCCTAAACGCAAATCTGATT
* *
2266866 ACTCATCTAGTTTGCCTCGCTATTATATCCCTAAACGCAAATCTGATT
1 ACTCACCTAGCTTGCCTCGCTATTATATCCCTAAACGCAAATCTGATT
* *
2266914 ACTCAGCTAGTTTGCCT
1 ACTCACCTAGCTTGCCT
2266931 TTGCCTTTCG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 61 1.00
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (48 bp):
ACTCACCTAGCTTGCCTCGCTATTATATCCCTAAACGCAAATCTGATT
Found at i:2268359 original size:11 final size:11
Alignment explanation
Indices: 2268345--2268402 Score: 73
Period size: 11 Copynumber: 5.4 Consensus size: 11
2268335 TGTTAGAGTA
2268345 TTATTAGTTTG
1 TTATTAGTTTG
2268356 TTATTAGTTTG
1 TTATTAGTTTG
* *
2268367 TTA-TGGGTTG
1 TTATTAGTTTG
* *
2268377 TTATTAGCTGG
1 TTATTAGTTTG
2268388 TTATTAGTTTG
1 TTATTAGTTTG
2268399 TTAT
1 TTAT
2268403 GTTGGTTACT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
10 8 0.21
11 31 0.79
ACGTcount: A:0.17, C:0.02, G:0.22, T:0.59
Consensus pattern (11 bp):
TTATTAGTTTG
Found at i:2270153 original size:11 final size:11
Alignment explanation
Indices: 2270139--2270196 Score: 73
Period size: 11 Copynumber: 5.4 Consensus size: 11
2270129 TGTTAGAGTA
2270139 TTATTAGTTTG
1 TTATTAGTTTG
2270150 TTATTAGTTTG
1 TTATTAGTTTG
* *
2270161 TTA-TGGGTTG
1 TTATTAGTTTG
* *
2270171 TTATTAGCTGG
1 TTATTAGTTTG
2270182 TTATTAGTTTG
1 TTATTAGTTTG
2270193 TTAT
1 TTAT
2270197 GTTGGTTACT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
10 8 0.21
11 31 0.79
ACGTcount: A:0.17, C:0.02, G:0.22, T:0.59
Consensus pattern (11 bp):
TTATTAGTTTG
Found at i:2270419 original size:20 final size:19
Alignment explanation
Indices: 2270374--2270428 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
2270364 TCTCACAAAG
* *
2270374 TGGTATCGATACCAAGAGG
1 TGGTATCGATACCATGAGA
*
2270393 GGAGTATCGATACCATGAAGA
1 TG-GTATCGATACCATG-AGA
2270414 TGGTATCGATACCAT
1 TGGTATCGATACCAT
2270429 TGAACATCGA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 1 0.03
20 26 0.87
21 3 0.10
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (19 bp):
TGGTATCGATACCATGAGA
Found at i:2270907 original size:59 final size:59
Alignment explanation
Indices: 2270841--2271410 Score: 860
Period size: 59 Copynumber: 9.7 Consensus size: 59
2270831 TGATTACCAA
*
2270841 ATGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAAGGCACTTCGTGTGCTAAC
1 ATGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
* * * *
2270900 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGTCGCTTCATGTGCTAAC
1 ATGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
*
2270959 ATGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGCGCTAAC
1 ATGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
* * * *
2271018 ATTG-TAAGCAATTCATACTAAGGGTATGAATTTCCATATAGGGTACTTCATGTGCTAAC
1 A-TGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
* *
2271077 ATGATAAGAAATTTATACTAAGTGTATAAATTTCCATATAGGGCACTTCGTGTGCTAAC
1 ATGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
* * *
2271136 ATGATAATG-AATTCATACTAAGTGTATGAATTTCCATACAGAGCACTTCATGTGCTAAC
1 ATGATAA-GAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
*
2271195 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
1 ATGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
*
2271254 ATGATAATG-AATTCATACTAAGTGTATGGATTTCCATATAGGGCACTTCGTGTGCTAAC
1 ATGATAA-GAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
* * * * * *
2271313 ATGATTAGGAATTCATATTAAGTATATGAATTTCCATATTGGGCACCTT-GTGTGCTAAA
1 ATGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCA-CTTCGTGTGCTAAC
*
2271372 ATGATAAGAAATTCATACTAAGTGTATGAAATTCCATAT
1 ATGATAAGAAATTCATACTAAGTGTATGAATTTCCATAT
2271411 GAAAAATGTG
Statistics
Matches: 463, Mismatches: 41, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
58 4 0.01
59 452 0.98
60 7 0.02
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (59 bp):
ATGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
Found at i:2271869 original size:28 final size:29
Alignment explanation
Indices: 2271836--2271913 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
2271826 GGATAAATAT
* *
2271836 TGTTGAGTAAAAGGATAATGG-TAAACAC
1 TGTTGAGTAAAAGAATAATGGTTAAACAA
* *
2271864 TGTTGAGTAAAA-TATGAAAGGTTAAACAA
1 TGTTGAGTAAAAGAAT-AATGGTTAAACAA
2271893 TGTTGAGTAAAAGAATAATGG
1 TGTTGAGTAAAAGAATAATGG
2271914 ACTATCTATG
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
27 2 0.05
28 16 0.38
29 22 0.52
30 2 0.05
ACGTcount: A:0.45, C:0.04, G:0.24, T:0.27
Consensus pattern (29 bp):
TGTTGAGTAAAAGAATAATGGTTAAACAA
Found at i:2272284 original size:19 final size:19
Alignment explanation
Indices: 2272262--2272306 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
2272252 TCAAATAAAG
2272262 AATAAAGGGGAAAATATAC
1 AATAAAGGGGAAAATATAC
2272281 AATAAAGGGGAAAATATAC
1 AATAAAGGGGAAAATATAC
2272300 AA-AAAGG
1 AATAAAGG
2272307 AGAAGTAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 5 0.19
19 21 0.81
ACGTcount: A:0.60, C:0.04, G:0.22, T:0.13
Consensus pattern (19 bp):
AATAAAGGGGAAAATATAC
Found at i:2272452 original size:42 final size:42
Alignment explanation
Indices: 2272393--2272481 Score: 160
Period size: 42 Copynumber: 2.1 Consensus size: 42
2272383 TTCTTCGTTT
* *
2272393 AGTATTCATAAGATATTGTCGTATAATTTGTAATATTCATGC
1 AGTATTCATAAGATATTGTCATATAATTTGTAATATTCATGA
2272435 AGTATTCATAAGATATTGTCATATAATTTGTAATATTCATGA
1 AGTATTCATAAGATATTGTCATATAATTTGTAATATTCATGA
2272477 AGTAT
1 AGTAT
2272482 AATGGCGTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.43
Consensus pattern (42 bp):
AGTATTCATAAGATATTGTCATATAATTTGTAATATTCATGA
Found at i:2275223 original size:55 final size:55
Alignment explanation
Indices: 2275108--2275693 Score: 892
Period size: 55 Copynumber: 10.7 Consensus size: 55
2275098 TCCAATATAT
* * * * * **
2275108 AAATTCATAAACTTATTATGAACTACTTAG-GTTGCACACACAGTTCCAATATAG
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACGG
* *
2275162 AAATTCATAAACATATTATGAATTTCTTAGTTTTGCACAAACAGTGCCCATACGG
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACGG
* *
2275217 AAATTCATAAACTCATTATGAATTTCTTAGTTTTGAACACACAGTGCCCATACGG
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACGG
* * * *
2275272 AAATTCATAAACTCATTATGAATTTCTTAATTTTGCACATACAGTGCCCATACGA
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACGG
2275327 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGT-CTCCATACGG
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGC-CCATACGG
* * * *
2275382 AAATTCAAAAACTTATTATGAATTTATTACTTTTGCACACACAATGCCCATACGG
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACGG
* *
2275437 AAATTCAAAAACTTATTATGAATATCTTAGTTTTGCACACACAGTGCCCATACGG
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACGG
* *
2275492 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAATGCTCATACGG
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACGG
* * *
2275547 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCCCACATAGTGCCCATAC-A
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACGG
*
2275601 AAATTCATAAACTTATTATGAATTCCTTAGTTTTGCACACACAGTGCCCATACGG
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACGG
2275656 AAATTCATAAACTTATTATGAATTTCTTAG-TTTGCACA
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACA
2275694 TATAGTACCT
Statistics
Matches: 485, Mismatches: 43, Indels: 8
0.90 0.08 0.01
Matches are distributed among these distances:
54 86 0.18
55 398 0.82
56 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.34
Consensus pattern (55 bp):
AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACGG
Found at i:2276085 original size:19 final size:19
Alignment explanation
Indices: 2276040--2276112 Score: 92
Period size: 19 Copynumber: 3.7 Consensus size: 19
2276030 TACCCCTACC
2276040 ATGGTATCGATACTTCTATACT
1 ATGGTATCGATAC-TCTAT--T
*
2276062 ATGGTACCGATACTCTATT
1 ATGGTATCGATACTCTATT
2276081 ATGGTATCGATACTCTATT
1 ATGGTATCGATACTCTATT
* *
2276100 ACGATATCGATAC
1 ATGGTATCGATAC
2276113 CATTTCTGCA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
19 30 0.64
21 5 0.11
22 12 0.26
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (19 bp):
ATGGTATCGATACTCTATT
Found at i:2277835 original size:59 final size:59
Alignment explanation
Indices: 2277743--2278252 Score: 754
Period size: 59 Copynumber: 8.7 Consensus size: 59
2277733 TGATTACCAA
* *
2277743 ATGATAAGGAATTCATACTAAGTGTTTGTATTTCCATATAGGGCACTTCGTGTGCTAAC
1 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
*
2277802 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTTTGCTAAC
1 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
* * * * * *
2277861 ATGATAAGGAATTCATACTTAGTGTATGAATTTCCATATA-TGCAGTTCATGTGTTGAC
1 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
* * * *
2277919 ATGATAAGGAATTCATACGAAATGTATCAATTTCCATATAGGGCACTTCATGTGCTAAC
1 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
* * * * *
2277978 ATGGTAAGAAATTCATAGTAAGTGTATGAATTTACATATAGGGTACTTCGTGTGCTAAC
1 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
2278037 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
1 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
2278096 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
1 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
* * *
2278155 ATGATAAGGAATTTATACTAAGTGTATGAATTTCCATATTGGGCACCTT-GTGTGCTAAA
1 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCA-CTTCGTGTGCTAAC
* * * * * *
2278214 ATGATTAGAAATTCGTAGTAAGTGCATGAACTTCCATAT
1 ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATAT
2278253 GAGAAATGTG
Statistics
Matches: 407, Mismatches: 42, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
58 48 0.12
59 356 0.87
60 3 0.01
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.34
Consensus pattern (59 bp):
ATGATAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCTAAC
Found at i:2278748 original size:81 final size:81
Alignment explanation
Indices: 2278536--2278735 Score: 278
Period size: 81 Copynumber: 2.5 Consensus size: 81
2278526 GTGCCTTTAC
* * * *
2278536 GGCCTAATTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGATAAATACTGT
1 GGCCTAACTGTGCAATTGACAGAAAGATGTCAATTATGCCAGTTAGATGAACAGATAAATACTGT
2278601 TGAGTAAAAGGATAAT
66 TGAGTAAAAGGATAAT
* * * * *
2278617 GACCTAACTGTGCAATTGACAGAAA-AGTATCAATTATACCATTTAGATGAACAGTTAAATA-TC
1 GGCCTAACTGTGCAATTGACAGAAAGA-TGTCAATTATGCCAGTTAGATGAACAGATAAATACT-
2278680 GTTGAGTAAAAGGATAAT
64 GTTGAGTAAAAGGATAAT
*
2278698 GGCCTAACTGTGCAATTGATAGAAAGATGTCAATTATG
1 GGCCTAACTGTGCAATTGACAGAAAGATGTCAATTATG
2278736 TTGGTTAGAT
Statistics
Matches: 103, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
80 1 0.01
81 101 0.98
82 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (81 bp):
GGCCTAACTGTGCAATTGACAGAAAGATGTCAATTATGCCAGTTAGATGAACAGATAAATACTGT
TGAGTAAAAGGATAAT
Found at i:2278773 original size:27 final size:28
Alignment explanation
Indices: 2278742--2278800 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
2278732 TATGTTGGTT
* *
2278742 AGATGAATGGGTAAAC-TGTTGAGTGAA
1 AGATGAAAGGGTAAACATGTTGAGTAAA
*
2278769 AGATGAAAGGTTAAACAATGTTGAGTAAA
1 AGATGAAAGGGTAAAC-ATGTTGAGTAAA
2278798 AGA
1 AGA
2278801 ATAATGAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 14 0.52
29 13 0.48
ACGTcount: A:0.44, C:0.03, G:0.29, T:0.24
Consensus pattern (28 bp):
AGATGAAAGGGTAAACATGTTGAGTAAA
Found at i:2278952 original size:2 final size:2
Alignment explanation
Indices: 2278939--2278971 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
2278929 TGAAGGGATG
*
2278939 AT AT AC 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
2278972 CATAATACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:2280502 original size:41 final size:44
Alignment explanation
Indices: 2280453--2280547 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 44
2280443 GACGAAAACA
* * * *
2280453 TTTT-TCACTAG-TCTTAGTTGGTGA-TTCTGATG-ACAATTGT
1 TTTTGTCACTAGTTCTTAATTGGTGATTTCCGATGAAAAATTAT
*
2280493 TTTTGTCACTAGTTTTTAATTGGTGATTTCCGATGAAAAATTAT
1 TTTTGTCACTAGTTCTTAATTGGTGATTTCCGATGAAAAATTAT
2280537 TTTTGTCACTA
1 TTTTGTCACTA
2280548 TTGAAGTGAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
40 4 0.09
41 7 0.15
42 11 0.24
43 7 0.15
44 17 0.37
ACGTcount: A:0.23, C:0.12, G:0.17, T:0.48
Consensus pattern (44 bp):
TTTTGTCACTAGTTCTTAATTGGTGATTTCCGATGAAAAATTAT
Found at i:2282558 original size:105 final size:106
Alignment explanation
Indices: 2282367--2282570 Score: 286
Period size: 105 Copynumber: 1.9 Consensus size: 106
2282357 AATAGTGATG
* * *
2282367 AACAATTGGTCACTAAAAAATTACTTTAGTGTGATAATATTGTTAGTCACATAATATATTTTCAA
1 AACAATTGGTCACTAAAAAAATACTTTAGTGTGACAATATTGATAGTCACATAATATATTTTCAA
* *
2282432 TGTCAAACAAATTTATCACAATTTCTATTGATAAAATATCA
66 TGTCAAACAAATTCATCACAATTTATATTGATAAAATATCA
* * * *
2282473 AACATTTGGTCACTAAAAAAATAC-TTAGTGTGACAATATTGATGGTCACA-AGGTATATTTTTA
1 AACAATTGGTCACTAAAAAAATACTTTAGTGTGACAATATTGATAGTCACATA-ATATATTTTCA
* *
2282536 GTGTCAAACAAATTCATTACAATTTATATTGATAA
65 ATGTCAAACAAATTCATCACAATTTATATTGATAA
2282571 CTATGTCGAA
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
104 1 0.01
105 63 0.73
106 22 0.26
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.37
Consensus pattern (106 bp):
AACAATTGGTCACTAAAAAAATACTTTAGTGTGACAATATTGATAGTCACATAATATATTTTCAA
TGTCAAACAAATTCATCACAATTTATATTGATAAAATATCA
Found at i:2282596 original size:105 final size:106
Alignment explanation
Indices: 2282373--2282599 Score: 269
Period size: 105 Copynumber: 2.1 Consensus size: 106
2282363 GATGAACAAT
* * *
2282373 TGGTCACTAAAAAATTACTTTAGTGTGATAATATTGTTAGTCACATAATATATTTTCAATGTCAA
1 TGGTCACTAAAAAAATACTTTAGTGTGACAATATTGATAGTCACATAATATATTTTCAATGTCAA
* * **
2282438 ACAAATTTATCACAATTTCTATTGATAAAATATCAAACATT
66 ACAAATTCATCACAATTTATATTGATAAAATATCAAACAGA
* * * *
2282479 TGGTCACTAAAAAAATAC-TTAGTGTGACAATATTGATGGTCACA-AGGTATATTTTTAGTGTCA
1 TGGTCACTAAAAAAATACTTTAGTGTGACAATATTGATAGTCACATA-ATATATTTTCAATGTCA
* * * * *
2282542 AACAAATTCATTACAATTTATATTGATAACTATGTCGAATAGA
65 AACAAATTCATCACAATTTATATTGATAA-AATATCAAACAGA
*
2282585 TGGTCACAAAAAAAA
1 TGGTCACTAAAAAAA
2282600 AACAATTGTG
Statistics
Matches: 102, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
104 1 0.01
105 63 0.62
106 38 0.37
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (106 bp):
TGGTCACTAAAAAAATACTTTAGTGTGACAATATTGATAGTCACATAATATATTTTCAATGTCAA
ACAAATTCATCACAATTTATATTGATAAAATATCAAACAGA
Found at i:2283717 original size:17 final size:19
Alignment explanation
Indices: 2283697--2283749 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
2283687 TACATATACG
*
2283697 TATATAATAATAAAAAATA
1 TATATAATAATAAATAATA
2283716 TAATATAATAGCATAAATAA-A
1 T-ATATAATA--ATAAATAATA
*
2283737 TAAATAATAATAA
1 TATATAATAATAA
2283750 TAGTAAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
18 4 0.14
19 1 0.03
20 15 0.52
21 2 0.07
22 7 0.24
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (19 bp):
TATATAATAATAAATAATA
Found at i:2283721 original size:20 final size:20
Alignment explanation
Indices: 2283698--2283751 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 20
2283688 ACATATACGT
2283698 ATATAATAATAAA-AAATATA
1 ATATAATAATAAATAAATA-A
2283718 ATATAATAGCATAAATAAATAA
1 ATATAATA--ATAAATAAATAA
2283740 ATAATAATAATA
1 AT-ATAATAATA
2283752 GTAAAAAGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 8 0.27
21 3 0.10
22 8 0.27
23 11 0.37
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (20 bp):
ATATAATAATAAATAAATAA
Found at i:2284008 original size:8 final size:7
Alignment explanation
Indices: 2283996--2284052 Score: 53
Period size: 8 Copynumber: 7.6 Consensus size: 7
2283986 GAAATAAGTA
2283996 AATATAT
1 AATATAT
2284003 ACATATAT
1 A-ATATAT
2284011 ATATAATAT
1 A-AT-ATAT
2284020 AATA-AT
1 AATATAT
*
2284026 AAAATAAT
1 AATAT-AT
2284034 AATATAT
1 AATATAT
2284041 ATATATAT
1 A-ATATAT
2284049 AATA
1 AATA
2284053 AAACGTAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
6 5 0.12
7 8 0.19
8 24 0.57
9 5 0.12
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (7 bp):
AATATAT
Found at i:2284031 original size:32 final size:29
Alignment explanation
Indices: 2283995--2284053 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 29
2283985 AGAAATAAGT
2283995 AAATATATACATATATATATAATATAATAATA
1 AAATA-ATA-ATATATATAT-ATATAATAATA
2284027 AAATAATAATATATATATATATAATAA
1 AAATAATAATATATATATATATAATAA
2284054 AACGTAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 9 0.33
30 10 0.37
31 3 0.11
32 5 0.19
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (29 bp):
AAATAATAATATATATATATATAATAATA
Found at i:2285685 original size:98 final size:98
Alignment explanation
Indices: 2285578--2286401 Score: 1504
Period size: 98 Copynumber: 8.4 Consensus size: 98
2285568 GTGTTGTTTC
*
2285578 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGTTTACTGACAACCAGCGGT
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGTTTATTGACAACCAGCGGT
*
2285643 CCCTTCGTCGTGAAGTTGAACTTTCGTTGTCTG
66 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
2285676 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCCCTGAAATTGTTTATTGACAACCAGCGGT
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGTTTATTGACAACCAGCGGT
*
2285741 CCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTG
66 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
2285774 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCCCTGAAATTGTTTATTGACAACCAGCGGT
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGTTTATTGACAACCAGCGGT
*
2285839 CCCTTCGTCGTGAAGTTGAACTTGCGCTGTCTG
66 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
**
2285872 GAGTCCAATATCCTTCGTTGCAAAGTTGAAATTGGCTCTGAAATTGTTTATTGACAACCAGCGGT
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGTTTATTGACAACCAGCGGT
*
2285937 CCCTTCTTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
2285970 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCCCTGAAATTGTTTATTGACAACCAGCGGT
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGTTTATTGACAACCAGCGGT
2286035 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
**
2286068 GAGTCCAATATCCTTCGTTGCAAAGTTGAAATTGGCTCTGAAATTGTTTATTGACAACCAGCGGT
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGTTTATTGACAACCAGCGGT
2286133 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
2286166 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTTTGAAATCGTTTATTGACAACCAGCGGT
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGTTTATTGACAACCAGCGGT
2286231 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
2286264 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATCGTTTATTGACAACCAGCGGT
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGTTTATTGACAACCAGCGGT
2286329 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
2286362 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
2286402 GGTAAAACCT
Statistics
Matches: 702, Mismatches: 24, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 702 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (98 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGTTTATTGACAACCAGCGGT
CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:2286195 original size:43 final size:43
Alignment explanation
Indices: 2286134--2286391 Score: 140
Period size: 43 Copynumber: 5.4 Consensus size: 43
2286124 ACCAGCGGTC
2286134 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
* * * ** * * *
2286177 CCTTCGTTGTGAAGTTGAAATTGGCTTTGAAATCGTTTATTGACAACCAGCGGT
1 CCTTCGTCGTGAAGTTGAACTT-GCGTTG---TC-TGGAGT-CCAA-TA----T
2286231 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 -CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
* * ** * * *
2286275 CCTTCGTTGTGAAGTTGAAATTG-GCTCTGAAATCGTTTATTGACAACCAGCGGT
1 CCTTCGTCGTGAAGTTGAACTTGCG-T-TG---TC-TGGAGT-CCAA-TA----T
2286329 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 -CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
*
2286373 CCTTCGTTGTGAAGTTGAA
1 CCTTCGTCGTGAAGTTGAA
2286392 ATTGACTCTG
Statistics
Matches: 158, Mismatches: 31, Indels: 52
0.66 0.13 0.22
Matches are distributed among these distances:
42 1 0.01
43 60 0.38
44 9 0.06
47 4 0.03
48 8 0.05
49 12 0.08
50 8 0.05
51 4 0.03
54 9 0.06
55 42 0.27
56 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (43 bp):
CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
Found at i:2287242 original size:46 final size:48
Alignment explanation
Indices: 2287170--2287261 Score: 134
Period size: 46 Copynumber: 2.0 Consensus size: 48
2287160 CTTTTCCTCT
* * *
2287170 TTTTTCTTTTCTCAATTTAGGGCGCCCTTTCGGGTTTTCACCCTAACG
1 TTTTTCTTTTCTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAACG
*
2287218 TTTTT-TTTTC-CAACTTAGGACGCCCTCTCGGGTTTTCATCCTAA
1 TTTTTCTTTTCTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAA
2287262 GCGAAGTATT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
46 30 0.75
47 5 0.12
48 5 0.12
ACGTcount: A:0.14, C:0.27, G:0.15, T:0.43
Consensus pattern (48 bp):
TTTTTCTTTTCTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAACG
Found at i:2297759 original size:31 final size:33
Alignment explanation
Indices: 2297693--2297771 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 33
2297683 AAAAAATGTA
*
2297693 AAAAAAAAAGTAATACATATACGTATATAATAAT
1 AAAAAAAAA-TAATACATATACGCATATAATAAT
*
2297727 AAAAAAAAATAATATA-ATA-GCATA-AATAAAT
1 AAAAAAAAATAATACATATACGCATATAAT-AAT
* *
2297758 AAATAATAATAATA
1 AAAAAAAAATAATA
2297772 GTAAAAAGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
30 3 0.08
31 19 0.47
32 3 0.08
33 6 0.15
34 9 0.22
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.25
Consensus pattern (33 bp):
AAAAAAAAATAATACATATACGCATATAATAAT
Found at i:2297965 original size:18 final size:18
Alignment explanation
Indices: 2297943--2297992 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
2297933 AAAAAATAGT
*
2297943 AATAATAGAAATAATAAG
1 AATAATAAAAATAATAAG
* * * *
2297961 GATAATATAAAGAATAAT
1 AATAATAAAAATAATAAG
2297979 AATAATAAAAATAA
1 AATAATAAAAATAA
2297993 AAATGGTATA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (18 bp):
AATAATAAAAATAATAAG
Found at i:2299738 original size:18 final size:18
Alignment explanation
Indices: 2299717--2299752 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2299707 TCCCTCACTT
2299717 CCTCCCTCTATCCCCCCC
1 CCTCCCTCTATCCCCCCC
* *
2299735 CCTCTCTCTCTCCCCCCC
1 CCTCCCTCTATCCCCCCC
2299753 AAGTTATCAT
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:0.03, C:0.72, G:0.00, T:0.25
Consensus pattern (18 bp):
CCTCCCTCTATCCCCCCC
Found at i:2301188 original size:22 final size:22
Alignment explanation
Indices: 2301148--2301189 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
2301138 GTTCATTTTC
*
2301148 GTTTATTTATTATTCGTGAAAT
1 GTTTATTTAATATTCGTGAAAT
* *
2301170 GTTTATTTAATGTTTGTGAA
1 GTTTATTTAATATTCGTGAA
2301190 CGTGTTCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.26, C:0.02, G:0.17, T:0.55
Consensus pattern (22 bp):
GTTTATTTAATATTCGTGAAAT
Found at i:2304161 original size:54 final size:55
Alignment explanation
Indices: 2304098--2304799 Score: 908
Period size: 55 Copynumber: 12.9 Consensus size: 55
2304088 TTACCAAATA
* * * * *
2304098 GGCACTAAGTTTTC-AATCCACCGAATTCATCATATGTTGATGAATAACCGTTTT
1 GGCACTAAGTGTGCAAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* * *
2304152 GGCACTAAGTGTACAAATTCACGAAATTCATCACATGTTGATGAATAACCGTTTC
1 GGCACTAAGTGTGCAAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* **
2304207 GGCACTAAGTGTGCAAATTCACGAAATTCATCATATGTTGATGAATAAGAGTTTC
1 GGCACTAAGTGTGCAAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* * *
2304262 GGCACTAAGTGTACAAATTCACAGAATTCAT-ATTATGTTGATGAATAATCGTTTC
1 GGCACTAAGTGTGCAAATTCACGGAATTCATCA-TATGTTGATGAATAACCGTTTC
* * *
2304317 GACACTAAGTGTGC-AATTCAGGGAATTCATCATATGTTGATGAATAACCATTTC
1 GGCACTAAGTGTGCAAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* * * * *
2304371 GGCACTAAGTGTGCAAATTCACGAAAATTCATCATAAGTTAAAGAATAACCGTTTT
1 GGCACTAAGTGTGCAAATTCACG-GAATTCATCATATGTTGATGAATAACCGTTTC
2304427 GGCACTAAGTGTGCAAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTTC
1 GGCACTAAGTGTGCAAATTCACGGAATTCATCATATGTTGATGAATAACCG-TTTC
2304483 -GCACTAAGTGTGC-AATTCACGGAATTCATCATATGTTGATGAATAACCGTTTTC
1 GGCACTAAGTGTGCAAATTCACGGAATTCATCATATGTTGATGAATAACCG-TTTC
* * *
2304537 -GCACTAAGTGTGC-AATTTACGGAATTCATCATATGTTGATGAATATCCATTTC
1 GGCACTAAGTGTGCAAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* * *
2304590 GGCAATAAGTGTGCAAATTCACGGAATTCATCATATGTTGATGAATGACCATTTC
1 GGCACTAAGTGTGCAAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
*
2304645 GGCACTAAGTGTGC-AATTCAC-AAATTCATCATATGTTGATGAATAACCGTTTC
1 GGCACTAAGTGTGCAAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
** * * * * *
2304698 ATCACTAAGTGTGC-AATCCACAGAATTTATCATGA-GTTGATGAATAATCG-TAC
1 GGCACTAAGTGTGCAAATTCACGGAATTCATCAT-ATGTTGATGAATAACCGTTTC
* *
2304751 AAGCACTAAGTGTGCAAATCCACGGAATTCATCAT-TAGTTGATGAATAA
1 -GGCACTAAGTGTGCAAATTCACGGAATTCATCATAT-GTTGATGAATAA
2304800 TCGTACAAGC
Statistics
Matches: 578, Mismatches: 56, Indels: 27
0.87 0.08 0.04
Matches are distributed among these distances:
53 53 0.09
54 202 0.35
55 271 0.47
56 52 0.09
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (55 bp):
GGCACTAAGTGTGCAAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
Found at i:2304866 original size:109 final size:108
Alignment explanation
Indices: 2304096--2304867 Score: 846
Period size: 109 Copynumber: 7.1 Consensus size: 108
2304086 GATTACCAAA
* * * * *
2304096 TAGGCACTAAGTTTTCAATCCACCGAATTCATCATATGTTGATGAATAACCGTTTTGGCACTAAG
1 TAGGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCG-TTCGGCACTAAG
* *
2304161 TGTACAAATTCAC-GAAATTCATCACATGTTGATGAATAACCGTT
65 TGTGCAAATTCACAG-AATTCATCATATGTTGATGAATAACCGTT
* * **
2304205 TCGGCACTAAGTGTGCAAATTCACGAAATTCATCATATGTTGATGAATAAGAGTTTCGGCACTAA
1 TAGGCACTAAGTGTGC-AATTCACGGAATTCATCATATGTTGATGAATAACCG-TTCGGCACTAA
* *
2304270 GTGTACAAATTCACAGAATTCAT-ATTATGTTGATGAATAATCGTT
64 GTGTGCAAATTCACAGAATTCATCA-TATGTTGATGAATAACCGTT
* * * *
2304315 TCGACACTAAGTGTGCAATTCAGGGAATTCATCATATGTTGATGAATAACCATTTCGGCACTAAG
1 TAGGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACC-GTTCGGCACTAAG
* * * *
2304380 TGTGCAAATTCACGAAAATTCATCATAAGTTAAAGAATAACCGTT
65 TGTGCAAATTCAC-AGAATTCATCATATGTTGATGAATAACCGTT
*
2304425 TTGGCACTAAGTGTGCAAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTTC-GCACTA
1 TAGGCACTAAGTGTGC-AATTCACGGAATTCATCATATGTTGATGAATAACCG--TTCGGCACTA
*
2304489 AGTGTGC-AATTCACGGAATTCATCATATGTTGATGAATAACCGTT
63 AGTGTGCAAATTCACAGAATTCATCATATGTTGATGAATAACCGTT
** * * * *
2304534 TTCGCACTAAGTGTGCAATTTACGGAATTCATCATATGTTGATGAATATCCATTTCGGCAATAAG
1 TAGGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACC-GTTCGGCACTAAG
* * *
2304599 TGTGCAAATTCACGGAATTCATCATATGTTGATGAATGACCATT
65 TGTGCAAATTCACAGAATTCATCATATGTTGATGAATAACCGTT
* * **
2304643 TCGGCACTAAGTGTGCAATTCAC-AAATTCATCATATGTTGATGAATAACCGTTTCATCACTAAG
1 TAGGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCG-TTCGGCACTAAG
* * * *
2304707 TGTGC-AATCCACAGAATTTATCATGA-GTTGATGAATAATCGTA
65 TGTGCAAATTCACAGAATTCATCAT-ATGTTGATGAATAACCGTT
* * * * * * *
2304750 CAAGCACTAAGTGTGCAAATCCACGGAATTCATCAT-TAGTTGATGAATAATCGTACAAGCACGA
1 TAGGCACTAAGTGTGC-AATTCACGGAATTCATCATAT-GTTGATGAATAACCGTTC-GGCACTA
* * * *
2304814 TGTGTGC-AACTCACATAATTCATCATGA-GTTGATGAACT-ACCGTA
63 AGTGTGCAAATTCACAGAATTCATCAT-ATGTTGATGAA-TAACCGTT
2304859 TAGGCACTA
1 TAGGCACTA
2304868 CTTGTGCATC
Statistics
Matches: 572, Mismatches: 72, Indels: 38
0.84 0.11 0.06
Matches are distributed among these distances:
107 45 0.08
108 94 0.16
109 239 0.42
110 142 0.25
111 49 0.09
112 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (108 bp):
TAGGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTCGGCACTAAGT
GTGCAAATTCACAGAATTCATCATATGTTGATGAATAACCGTT
Found at i:2305223 original size:68 final size:68
Alignment explanation
Indices: 2305138--2305342 Score: 311
Period size: 68 Copynumber: 3.0 Consensus size: 68
2305128 AAAGATTAAT
* *
2305138 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTATATGAAAGGCTAAGTGCCTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGTCTT
2305203 TGA
66 TGA
*
2305206 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGTCTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGTCTT
*
2305271 TGT
66 TGA
* * * * * * *
2305274 GGCCTAGTTGTGCATTTGACAAAAAAGTGTCAATCATGACAGTTAGATGAAAGGTTAAATGTCTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGTCTT
2305339 TGA
66 TGA
2305342 G
1 G
2305343 TAAAATACTA
Statistics
Matches: 124, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 124 1.00
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (68 bp):
GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGTCTT
TGA
Done.