Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold195
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: 1914327
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.29
Warning! 179916 characters in sequence are not A, C, G, or T
File 8 of 12
Found at i:1019560 original size:21 final size:21
Alignment explanation
Indices: 1019534--1019610 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
1019524 AAATTATCCA
1019534 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
1019555 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
* *
1019576 AATGTATCGATACA-TTCTACA
1 AATGTATCGATACATTTGTA-G
1019597 AATGTATCGATACA
1 AATGTATCGATACA
1019611 GGGTCCCAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:1019705 original size:13 final size:13
Alignment explanation
Indices: 1019687--1019712 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1019677 CATTTTTCTG
1019687 TGTATCGATACAT
1 TGTATCGATACAT
1019700 TGTATCGATACAT
1 TGTATCGATACAT
1019713 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1019708 original size:33 final size:33
Alignment explanation
Indices: 1019666--1019733 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
1019656 TACATAAGTT
***
1019666 TTGTATCGATACATTTTTCTGTGTATCGATACA
1 TTGTATCGATACATGGATCTGTGTATCGATACA
*
1019699 TTGTATCGATACATGGATCTTTGTATCGATACA
1 TTGTATCGATACATGGATCTGTGTATCGATACA
1019732 TT
1 TT
1019734 TGGAAATTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.44
Consensus pattern (33 bp):
TTGTATCGATACATGGATCTGTGTATCGATACA
Found at i:1022134 original size:51 final size:51
Alignment explanation
Indices: 1022074--1022459 Score: 241
Period size: 52 Copynumber: 7.4 Consensus size: 51
1022064 AATTCTCCAC
* * * *
1022074 AATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTAT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCTAT
* *
1022125 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAA-TTTCTTCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCC--AAAACACCAATTTTC-T-AT
* * * * ***
1022179 AATCGGGGATACTCCAACCCCG--TTGATCAT-CAGGGATACTCCAA-CCCCGT-T
1 AATCGGGGATACTCCAACCCCGATTTTAT-TTCCA---AAACACCAATTTTC-TAT
* * * ***
1022230 ATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTT-TCAT
1 A-AT-C--GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCT-AT
* * * * *
1022285 AATCGGGGATACTCCAACCCC-AGTTTTATTGCTAAAACACTAATTTTTCCAC
1 AATCGGGGATACTCCAACCCCGA-TTTTATTTCCAAAACACCAA-TTTTCTAT
* * * *
1022337 AATCGGGGATACTCCAACCCCGGTTTTATTTTCGAAACACCAATTTTCCTTT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTT-CTAT
* * *
1022389 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTT-TCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCC-AAAACACCAATTTTCT-AT
* *
1022441 AGTCGAGGATACTCCAACC
1 AATCGGGGATACTCCAACC
1022460 TCGTTATTTC
Statistics
Matches: 256, Mismatches: 54, Indels: 49
0.71 0.15 0.14
Matches are distributed among these distances:
50 2 0.01
51 68 0.27
52 98 0.38
53 35 0.14
54 26 0.10
55 20 0.08
56 1 0.00
57 6 0.02
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (51 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCTAT
Found at i:1022266 original size:31 final size:28
Alignment explanation
Indices: 1022183--1022255 Score: 98
Period size: 27 Copynumber: 2.6 Consensus size: 28
1022173 CTTCACAATC
*
1022183 GGGGATACTCCAACCCCGTTGATCAT-C-A
1 GGGGATACTCCAACCCCGTT-AT-TTCCGA
1022211 -GGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTATTTCCGA
1022238 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
1022256 ACTTTATTTC
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
25 1 0.02
26 3 0.07
27 20 0.49
28 17 0.41
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCCGA
Found at i:1022479 original size:28 final size:28
Alignment explanation
Indices: 1022447--1022518 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
1022437 TCACAGTCGA
* * **
1022447 GGATACTCCAACCTCGTTATTTCATCGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
*
1022475 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
1022503 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
1022519 GCTTTATTCC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCAGAGG
Found at i:1022536 original size:263 final size:263
Alignment explanation
Indices: 1022069--1022568 Score: 808
Period size: 263 Copynumber: 1.9 Consensus size: 263
1022059 TTCTCAATTC
* * *
1022069 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
*
1022134 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
*
1022199 CGTTGATCATCAGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATT
131 CGTTGATCATCAGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATT
* *
1022264 TCCAAAATATTGATTTTTCATAATCGGGGATACTCCAACCCCAGTTTTATTGCTAAAACACTAAT
196 CCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCAGTTTTATTGCTAAAACACTAAT
1022329 TTT
261 TTT
* * *
1022332 TCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCGAAACACCAATTTTCCTTTAATCGGGG
1 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGG
* *
1022397 ATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAGTCGAGGATACTCCAACC
65 ATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACC
* * *
1022460 TCGTT-ATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
130 CCGTTGA--TCATCAGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTT
*
1022524 ATTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCC
193 ATTCCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCC
1022569 GTTATTTTCG
Statistics
Matches: 218, Mismatches: 16, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
261 1 0.00
262 26 0.12
263 155 0.71
264 36 0.17
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (263 bp):
TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTGATCATCAGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATT
CCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCAGTTTTATTGCTAAAACACTAAT
TTT
Found at i:1022621 original size:79 final size:79
Alignment explanation
Indices: 1022472--1022676 Score: 216
Period size: 79 Copynumber: 2.6 Consensus size: 79
1022462 GTTATTTCAT
* * * *
1022472 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGAGATACTCCAACCCCGACTTTATTCCCAAAATAT
* * *
1022537 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * * ** *
1022551 TGGGGATACTCCAACCCCGTTATTTTCGAGGAGATACTCCAATCCCGATTTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGAGATACTCCAACCCCGACTTTATTCCCAAAAT-A
*
1022615 TCGATTTCTTACAAC
65 TCGATTTCTCACAAC
* * *
1022630 CGGGGATACTCCAGCCCCGTTATTTTCAAGG-GAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGAG-ATACTCCAACCCCG
1022677 TTATTATCTC
Statistics
Matches: 104, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
78 4 0.04
79 100 0.96
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGAGATACTCCAACCCCGACTTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:1035004 original size:20 final size:18
Alignment explanation
Indices: 1034979--1035032 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
1034969 CCTTCTCTTC
1034979 AAAAAAGAAAGAAAAACAAA
1 AAAAAAGAAA-AAAAAC-AA
*
1034999 AAAAAAAACAAAAAAACAA
1 AAAAAAGA-AAAAAAACAA
*
1035018 AACAAAGAAAAAAAA
1 AAAAAAGAAAAAAAA
1035033 AGGAAAATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 7 0.23
19 8 0.27
20 13 0.43
21 2 0.07
ACGTcount: A:0.87, C:0.07, G:0.06, T:0.00
Consensus pattern (18 bp):
AAAAAAGAAAAAAAACAA
Found at i:1035012 original size:13 final size:13
Alignment explanation
Indices: 1034990--1035033 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
1034980 AAAAAGAAAG
1034990 AAAAAC-AAAAAA
1 AAAAACAAAAAAA
1035002 AAAAACAAAAAAA
1 AAAAACAAAAAAA
*
1035015 CAAAACAAAGAAAA
1 AAAAACAAA-AAAA
1035029 AAAAA
1 AAAAA
1035034 GGAAAATCTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 6 0.21
13 14 0.50
14 8 0.29
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (13 bp):
AAAAACAAAAAAA
Found at i:1036181 original size:61 final size:59
Alignment explanation
Indices: 1036006--1037121 Score: 1295
Period size: 61 Copynumber: 19.3 Consensus size: 59
1035996 GCTTTTTAGC
* * * *
1036006 CCTCAAAAAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGTACCTTCAGT
1 CCTCAAAGAGCAGGACGCC-TTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTCCAGT
* *
1036066 CCTCAAAGAGCAGGA---C--ACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGT
1 CCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT-CCAGT
*
1036121 CCTCAAAGAGCAGGACGCATTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATCCTCCAGT
1 CCTCAAAGAGCAGGACGCCTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTCCAGT
* * * *
1036182 CCTCAAAGAGCGGGATGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCC-GT
1 CCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC--TCCAGT
* * *
1036242 CCCCAAAGAGCAGGA--CC---CCTTTTAAAGCCCACATAAGTTGGTGGCACTTCCCAGT
1 CCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT-CCAGT
* **
1036297 CCTCAAAGAGCAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGT
1 CCTCAAAGAGCAGGACGCCTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTCCAGT
* * *
1036358 CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
1 CCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTCCAGT
* * *
1036417 CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
1 CCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTCCAGT
* * *
1036476 CCTCAAAGAGCAGGACGCATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
1 CCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTCCAGT
* * **
1036535 CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTGA-T
1 CCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTCCAGT
* *
1036593 CCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
1 CCTCAAAGAGCAGGACGCC-TTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTCCAGT
* *
1036653 CCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
1 CCTCAAAGAGCAGGACGCC-TTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTCCAGT
* * *
1036713 CCTCAAAGAGCAGGA---C--ACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAAT
1 CCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT-CCAGT
* *
1036768 CCTCAAAGAGCAGGACGCCTTCCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGT
1 CCTCAAAGAGCAGGACGCCTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCACCT-CCAGT
* **
1036829 CCTCAAAGAGCAGGACGCCTTCCCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGT
1 CCTCAAAGAGCAGGACGCCTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTCCAGT
* * *
1036890 CCTCAAAGAG-AGGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
1 CCTCAAAGAGCA-GGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC-TCCAGT
*
1036950 CCTCAAAGAGCAGGACACCTTT-C----AAAGCCCACACAAGTTGGTGG------CA-T
1 CCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTCCAGT
* *
1036997 CCTCAAAGAGCAGGACACC--T-C--TTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
1 CCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC-TCCAGT
* * * **
1037052 TCTCAAATAGCAGGACGCCTTT-C----AAAGCCCACACAAGTTGGTGGCACTTTTTAGT
1 CCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTCCAGT
1037107 CCTCAAAGAGCAGGA
1 CCTCAAAGAGCAGGA
1037122 TACACTTTAT
Statistics
Matches: 953, Mismatches: 58, Indels: 95
0.86 0.05 0.09
Matches are distributed among these distances:
45 2 0.00
47 41 0.04
48 2 0.00
53 1 0.00
54 65 0.07
55 160 0.17
57 6 0.01
58 21 0.02
59 214 0.22
60 214 0.22
61 221 0.23
62 6 0.01
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.24
Consensus pattern (59 bp):
CCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTCCAGT
Found at i:1036253 original size:176 final size:173
Alignment explanation
Indices: 1036006--1037121 Score: 1379
Period size: 176 Copynumber: 6.4 Consensus size: 173
1035996 GCTTTTTAGC
* * * * *
1036006 CCTCAAAAAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGTACC-TTCAGTCCTC
1 CCTCAAAGAGCGGGACGCCTTTT-CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC
*
1036070 AAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGG
65 AAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCACTT--CAGTCCTCAAAGAGCAGG
1036135 ACGCATTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATCCTCCAGT
128 ACGCATTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTCCAGT
* * *
1036182 CCTCAAAGAGCGGGATGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCCGTCCCCA
1 CCTCAAAGAGCGGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA
*
1036247 AAGAGCAGGACCCCTTTTAAAGCCCACATAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGA
66 AAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCACTT--CAGTCCTCAAAGAGCAGGA
* * **
1036312 TGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGT
129 CGCATTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTCCAGT
*
1036358 CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCA
1 CCTCAAAGAGCGGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA
*
1036422 AAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGC
66 AAGAGCAGGAC-CC----CTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCAGTCCTCAAAGAGC
* *
1036487 AGGACGCATT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
125 AGGACGCATTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTCCAGT
* *
1036535 CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTGA-TCCTCA
1 CCTCAAAGAGCGGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA
1036598 AAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAG
66 AAGAGCAGGA--CC----CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCAGTCCTCAAAGAG
* * * *
1036663 CAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
124 CAGGACGCATTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTCCAGT
* * * *
1036713 CCTCAAAGAGCAGGACACC---T-TTT-AAAGCCCACACAAGTTGGTGGCA-CTTCCCAATCCTC
1 CCTCAAAGAGCGGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-TCAGTCCTC
1036772 AAAGAGCAGGACGCCTTCCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAG
65 AAAGAGCAGGA------CCCCTTTTAAAGCCCACACAAGTTGGTGGCACTT--CAGTCCTCAAAG
* * **
1036837 AGCAGGACGCCTTCCCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGT
122 AGCAGGACGCATTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTCCAGT
*
1036890 CCTCAAAGAGAGGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA
1 CCTCAAAGAGCGGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA
* *
1036955 AAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGG-----CA-TCCTCAAAGAGCAGGA--
66 AAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCAGTCCTCAAAGAGCAGGACG
* *
1037012 CA----CCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
131 CATTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACC-TCCAGT
* * * * *
1037052 TCTCAAATAGCAGGACG-C----CTTTCAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCA
1 CCTCAAAGAGCGGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA
1037112 AAGAGCAGGA
66 AAGAGCAGGA
1037122 TACACTTTAT
Statistics
Matches: 851, Mismatches: 58, Indels: 81
0.86 0.06 0.08
Matches are distributed among these distances:
157 50 0.06
161 1 0.00
162 46 0.05
166 1 0.00
168 16 0.02
169 2 0.00
172 1 0.00
173 24 0.03
174 7 0.01
175 93 0.11
176 283 0.33
177 138 0.16
178 84 0.10
179 26 0.03
180 28 0.03
181 7 0.01
182 41 0.05
183 3 0.00
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.24
Consensus pattern (173 bp):
CCTCAAAGAGCGGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA
AAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCAGTCCTCAAAGAGCAGGACG
CATTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTCCAGT
Found at i:1037024 original size:47 final size:48
Alignment explanation
Indices: 1036949--1037099 Score: 198
Period size: 47 Copynumber: 3.0 Consensus size: 48
1036939 CACCTTTCAG
1036949 TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-
1 TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC
1036996 TCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACC
1 TCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-C
* *
1037045 TTTCAGTTCTCAAATAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCAC
1 --TC----CTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC
1037099 T
1 T
1037100 TTTTAGTCCT
Statistics
Matches: 92, Mismatches: 2, Indels: 15
0.84 0.02 0.14
Matches are distributed among these distances:
47 44 0.48
48 2 0.02
51 2 0.02
52 1 0.01
54 3 0.03
55 40 0.43
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (48 bp):
TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC
Found at i:1037190 original size:42 final size:42
Alignment explanation
Indices: 1037105--1037193 Score: 108
Period size: 42 Copynumber: 2.1 Consensus size: 42
1037095 GCACTTTTTA
* * *
1037105 GTCCTCAAAGAGCAGGATACACTTTATTTTCCTCTTTCTTTT
1 GTCCTCAAAGAGCAGGACACACTTTATTTCCCTCTTTCATTT
* * *
1037147 GTCCTCAGAGAGCAGGACATA-TTTCATTTCCCTTTTTCATTT
1 GTCCTCAAAGAGCAGGACACACTTT-ATTTCCCTCTTTCATTT
1037189 GTCCT
1 GTCCT
1037194 TGGAAAATGG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
41 3 0.08
42 37 0.93
ACGTcount: A:0.20, C:0.25, G:0.13, T:0.42
Consensus pattern (42 bp):
GTCCTCAAAGAGCAGGACACACTTTATTTCCCTCTTTCATTT
Found at i:1037885 original size:13 final size:13
Alignment explanation
Indices: 1037867--1037892 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1037857 CATTTTTTTG
1037867 TGTATCGATACAT
1 TGTATCGATACAT
1037880 TGTATCGATACAT
1 TGTATCGATACAT
1037893 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1040314 original size:51 final size:53
Alignment explanation
Indices: 1040246--1040376 Score: 178
Period size: 51 Copynumber: 2.5 Consensus size: 53
1040236 AGTTTCTCAA
* * * *
1040246 TTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
*
1040297 TT-TTCTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
1040351 TTCTTCACAATCGGGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
1040377 CCCGTTATTT
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
50 2 0.03
51 34 0.49
53 9 0.13
54 21 0.30
55 3 0.04
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:1040385 original size:51 final size:49
Alignment explanation
Indices: 1040243--1040388 Score: 152
Period size: 51 Copynumber: 2.9 Consensus size: 49
1040233 TTGAGTTTCT
* * *
1040243 CAATTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACAC
1 CAATTCTTCACAATCGGGGATACTCCAACTCCG--TTTATTTCCAAAACAC
* *
1040294 TAATT-TTCTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACAC
1 CAATTCTTC-ACAATCGGGGATACTCCAACTCCG--TTTATTTCC--AAAACAC
*
1040347 CAATTTCTTCACAATCGGGGATACTCCAACCCCG-TTATTTCC
1 CAA-TTCTTCACAATCGGGGATACTCCAACTCCGTTTATTTCC
1040389 GAGGGGATAC
Statistics
Matches: 82, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
50 2 0.02
51 44 0.54
53 9 0.11
54 24 0.29
55 3 0.04
ACGTcount: A:0.30, C:0.27, G:0.10, T:0.32
Consensus pattern (49 bp):
CAATTCTTCACAATCGGGGATACTCCAACTCCGTTTATTTCCAAAACAC
Found at i:1040451 original size:51 final size:51
Alignment explanation
Indices: 1040391--1040612 Score: 203
Period size: 52 Copynumber: 4.3 Consensus size: 51
1040381 TTATTTCCGA
* * *** *
1040391 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATC
* * * * *
1040442 GGGGATACTCCAACTCCGGTTTTATTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTT-CACAATC
* * * * * **
1040494 GGGGATACTGCAACCTCGGTTTTAATTT-CGAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTT-ATTTCCAAAACACCAATTTTTC-ACAATC
* * *
1040546 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAGTC
1 GGGGATACTCCAACCCCGATTTTATTTCC-AAAACACCAATTTTTCACAATC
*
1040598 GAGGATACTCCAACC
1 GGGGATACTCCAACC
1040613 TCGTTATTTC
Statistics
Matches: 135, Mismatches: 31, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
51 41 0.30
52 78 0.58
53 16 0.12
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATC
Found at i:1040632 original size:28 final size:28
Alignment explanation
Indices: 1040598--1040671 Score: 98
Period size: 28 Copynumber: 2.6 Consensus size: 28
1040588 TTTCACAGTC
* *
1040598 GAGGATACTCCAACCTCGTTATTTCATCG-
1 GAGGATACTCCAACCCCGTTACTTC--CGA
1040627 G-GGATACTCCAACCCCGTTACTTCCGA
1 GAGGATACTCCAACCCCGTTACTTCCGA
1040654 GAGGATACTCCAACCCCG
1 GAGGATACTCCAACCCCG
1040672 GCTTTATTCC
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
26 2 0.05
27 1 0.02
28 37 0.90
29 1 0.02
ACGTcount: A:0.24, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
GAGGATACTCCAACCCCGTTACTTCCGA
Found at i:1040745 original size:28 final size:29
Alignment explanation
Indices: 1040705--1040759 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
1040695 TCTCATAATT
1040705 GGGGATACTCCAACCCCG-TTATTTTTGA
1 GGGGATACTCCAACCCCGATTATTTTTGA
* *
1040733 GGGGATACTCCAATCCCGATTTTTTTT
1 GGGGATACTCCAACCCCGATTATTTTT
1040760 TCTAATCATC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (29 bp):
GGGGATACTCCAACCCCGATTATTTTTGA
Found at i:1040774 original size:79 final size:79
Alignment explanation
Indices: 1040625--1040828 Score: 207
Period size: 79 Copynumber: 2.6 Consensus size: 79
1040615 GTTATTTCAT
* * *
1040625 CGGGGATACTCCAACCCCGTTACTTCCGAGAGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGAGGATACTCCAACCCCGACTTTATTCCCAAAATAT
* * *
1040690 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * * * * ** *
1040704 TGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAATCCCGATTTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGAGGATACTCCAACCCCGACTTTATTCCCAAAAT-A
1040768 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* * *
1040783 CGAGGATACTCC-ACCCCGTTATTTTCAAG-GGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGAGG-ATACTCCAACCCCG
1040829 TTATTATCTC
Statistics
Matches: 102, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
77 2 0.02
78 30 0.29
79 70 0.69
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGAGGATACTCCAACCCCGACTTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:1043404 original size:20 final size:20
Alignment explanation
Indices: 1043379--1043430 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
1043369 AATTCCTTAG
1043379 TGTATCGATACAAAGCAATA
1 TGTATCGATACAAAGCAATA
** *
1043399 TGTATCGATACTTAGCAATT
1 TGTATCGATACAAAGCAATA
1043419 TGTATCGATACA
1 TGTATCGATACA
1043431 TCTGGGTGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (20 bp):
TGTATCGATACAAAGCAATA
Found at i:1052215 original size:13 final size:13
Alignment explanation
Indices: 1052197--1052221 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1052187 TATCATTGTT
1052197 TGTATCGATACAA
1 TGTATCGATACAA
1052210 TGTATCGATACA
1 TGTATCGATACA
1052222 TTTTGCCCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1054902 original size:26 final size:24
Alignment explanation
Indices: 1054857--1054905 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
1054847 CCCAAGGAGT
* *
1054857 AAAAAAATAAAGAGAGGAAAAAGC
1 AAAAAAATAAAAAGAAGAAAAAGC
1054881 AAAAAAATAAAAAAGAAAGAAAAAG
1 AAAAAAAT-AAAAAG-AAGAAAAAG
1054906 AGAGAAAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 8 0.38
25 5 0.24
26 8 0.38
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.04
Consensus pattern (24 bp):
AAAAAAATAAAAAGAAGAAAAAGC
Found at i:1055917 original size:58 final size:57
Alignment explanation
Indices: 1055850--1056074 Score: 249
Period size: 57 Copynumber: 3.9 Consensus size: 57
1055840 AAAGAATTTG
* * * *
1055850 ATGTCATTTTATGAATTTTAATGTCATTCAGGTCATTTTTCATGATCTAGGGACTATA
1 ATGTAATTTTATGAATGTTAATGTCATTTAAGTCATTTTTCATGATCTAGGGACT-TA
* * * *
1055908 AGGTAATTTTATAAATATTGATGTCATTTAAGT--TTTTTCCATGATCTAGGGACTTA
1 ATGTAATTTTATGAATGTTAATGTCATTTAAGTCATTTTT-CATGATCTAGGGACTTA
* * *
1055964 GATGTAATTTTGTGAATGTTAATGTCATTTAAGTCATTTTTCATGATCTAGAGACTTCG
1 -ATGTAATTTTATGAATGTTAATGTCATTTAAGTCATTTTTCATGATCTAGGGACTT-A
* * * * *
1056023 ATGCAATTTTATGAATGTTGATATCA-TTAAGTCATTTTCCATGATTTAGGGA
1 ATGTAATTTTATGAATGTTAATGTCATTTAAGTCATTTTTCATGATCTAGGGA
1056075 TTTTCATGCA
Statistics
Matches: 141, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
56 7 0.05
57 66 0.47
58 63 0.45
59 5 0.04
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (57 bp):
ATGTAATTTTATGAATGTTAATGTCATTTAAGTCATTTTTCATGATCTAGGGACTTA
Found at i:1056031 original size:115 final size:115
Alignment explanation
Indices: 1055849--1056074 Score: 294
Period size: 115 Copynumber: 2.0 Consensus size: 115
1055839 TAAAGAATTT
* * * * *
1055849 GATGTCATTTTATGAATTTTAATGTCATTCAGGTCATTTTTCATGATCTAGGGACTATAAGGTAA
1 GATGTAATTTTATGAATGTTAATGTCATTCAAGTCATTTTTCATGATCTAGAGACTATAAGGCAA
* *
1055914 TTTTATAAATATTGATGTCATTTAAGT-TTTTTCCATGATCTAGGGACTTA
66 TTTTATAAATATTGATATCA-TTAAGTCATTTTCCATGATCTAGGGACTTA
* * * *
1055964 GATGTAATTTTGTGAATGTTAATGTCATTTAAGTCATTTTTCATGATCTAGAGACT-TCGATGCA
1 GATGTAATTTTATGAATGTTAATGTCATTCAAGTCATTTTTCATGATCTAGAGACTAT-AAGGCA
* * *
1056028 ATTTTATGAATGTTGATATCATTAAGTCATTTTCCATGATTTAGGGA
65 ATTTTATAAATATTGATATCATTAAGTCATTTTCCATGATCTAGGGA
1056075 TTTTCATGCA
Statistics
Matches: 95, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
114 7 0.07
115 88 0.93
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (115 bp):
GATGTAATTTTATGAATGTTAATGTCATTCAAGTCATTTTTCATGATCTAGAGACTATAAGGCAA
TTTTATAAATATTGATATCATTAAGTCATTTTCCATGATCTAGGGACTTA
Found at i:1056098 original size:115 final size:115
Alignment explanation
Indices: 1055862--1056107 Score: 264
Period size: 115 Copynumber: 2.1 Consensus size: 115
1055852 GTCATTTTAT
* * * * *
1055862 GAATTTTAATGTCATTCAGGTCATTTTTCATGATCTAGGGACTATAAGGTAATTTTATAAATATT
1 GAATGTTAATGTCATTTAAGTCATTTTTCATGATCTAGAGACTATAAGGCAATTTTATAAATATT
* * * * ***
1055927 GATGTCATTTAAGTTTTTTCCATGATCTAGGGACTTAGATGTAATTTTGT
66 GATATCATTTAAGTATTTTCCATGATCTAGGGACTTACATGCAATTTCAA
* * * *
1055977 GAATGTTAATGTCATTTAAGTCATTTTTCATGATCTAGAGACT-TCGATGCAATTTTATGAATGT
1 GAATGTTAATGTCATTTAAGTCATTTTTCATGATCTAGAGACTAT-AAGGCAATTTTATAAATAT
* * *
1056041 TGATATCA-TTAAGTCATTTTCCATGATTTAGGGATTTTCATGCAATTTCAA
65 TGATATCATTTAAGT-ATTTTCCATGATCTAGGGACTTACATGCAATTTCAA
* *
1056092 GTATGTTCATGT-ATTT
1 GAATGTTAATGTCATTT
1056108 TAGATATATT
Statistics
Matches: 108, Mismatches: 21, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
114 11 0.10
115 97 0.90
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (115 bp):
GAATGTTAATGTCATTTAAGTCATTTTTCATGATCTAGAGACTATAAGGCAATTTTATAAATATT
GATATCATTTAAGTATTTTCCATGATCTAGGGACTTACATGCAATTTCAA
Found at i:1061434 original size:32 final size:32
Alignment explanation
Indices: 1061393--1061464 Score: 126
Period size: 32 Copynumber: 2.2 Consensus size: 32
1061383 ACATTTAGTA
1061393 AATGTATCGATACATAAGTGTTGTATAGATAC
1 AATGTATCGATACATAAGTGTTGTATAGATAC
* *
1061425 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATAGATAC
1061457 AATGTATC
1 AATGTATC
1061465 ACTAGAAAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATAGATAC
Found at i:1061451 original size:19 final size:19
Alignment explanation
Indices: 1061372--1061457 Score: 67
Period size: 19 Copynumber: 4.7 Consensus size: 19
1061362 ATTCCAATAA
*
1061372 TTTGTATCGATACATTTAGT
1 TTTGTATCGATACA-TAAGT
**
1061392 AAATGTATCGATACATAAGT
1 -TTTGTATCGATACATAAGT
* *
1061412 GTTGTATAGATAC--AA--
1 TTTGTATCGATACATAAGT
1061427 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1061444 TTTGTATCGATACA
1 TTTGTATCGATACA
1061458 ATGTATCACT
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
13 10 0.19
15 2 0.04
17 2 0.04
19 22 0.42
20 4 0.08
21 12 0.23
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1061527 original size:13 final size:13
Alignment explanation
Indices: 1061509--1061534 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1061499 CATTTTTCTA
1061509 TGTATCGATACAT
1 TGTATCGATACAT
1061522 TGTATCGATACAT
1 TGTATCGATACAT
1061535 CTATTCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1061552 original size:34 final size:33
Alignment explanation
Indices: 1061489--1061555 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
1061479 GCCAAGGAAA
*
1061489 TGTATCGATACATTTTTCTATGTATCGATACAT
1 TGTATCGATACATTATTCTATGTATCGATACAT
*
1061522 TGTATCGATACATCTATTCTTTGTATCGATACAT
1 TGTATCGATACAT-TATTCTATGTATCGATACAT
1061556 CTAGGAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 13 0.42
34 18 0.58
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATTATTCTATGTATCGATACAT
Found at i:1063992 original size:52 final size:52
Alignment explanation
Indices: 1063871--1064006 Score: 168
Period size: 52 Copynumber: 2.6 Consensus size: 52
1063861 TGTTAAGTTT
* * *
1063871 CTCAATTGTTCATAATCGGGGATACTCTAACCCCGATTTTATTTTCAAAACA
1 CTCAATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACA
* * *
1063923 C-CAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAA-A
1 CTCAATTTTTC-ATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACA
* *
1063974 CCTCAATTTTTCACAATCGAGGATACTCCAACC
1 -CTCAATTTTTCATAATCGGGGATACTCCAACC
1064007 TCGTTATTTC
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
51 8 0.11
52 54 0.77
53 8 0.11
ACGTcount: A:0.30, C:0.26, G:0.10, T:0.33
Consensus pattern (52 bp):
CTCAATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACA
Found at i:1064051 original size:28 final size:28
Alignment explanation
Indices: 1063994--1064063 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
1063984 TCACAATCGA
* ** *
1063994 GGATACTCCAACCTCGTTATTTCATCGG
1 GGATACTCCAACCCCGTTACCTCATAGG
1064022 GGATACTCCAACCCCGTTACCTC-TGAGG
1 GGATACTCCAACCCCGTTACCTCAT-AGG
*
1064050 GGATACTCTAACCC
1 GGATACTCCAACCC
1064064 TGGCTTTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
27 1 0.03
28 35 0.97
ACGTcount: A:0.23, C:0.33, G:0.19, T:0.26
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACCTCATAGG
Found at i:1064126 original size:79 final size:78
Alignment explanation
Indices: 1064020--1064221 Score: 223
Period size: 79 Copynumber: 2.6 Consensus size: 78
1064010 TTATTTCATC
** *
1064020 GGGGATACTCCAACCCCGTTACCTCTGAGGGGATACTCTAACCCTGGCTT-TATTTCCAAA--AT
1 GGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCTAACCC--GATTCTATTTCCAAATCAT
* **
1064082 ACTGATTTCTCATAGTT
64 -C-GATTTCTCACAACT
* * *
1064099 GGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAATCCCGATTCTATTTTCTAATCATC
1 GGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCTAA-CCCGATTCTATTTCCAAATCATC
*
1064164 GATTTTTCACAACT
65 GATTTCTCACAACT
*
1064178 GGGGATACTCCAACCCCGTTATTT-TCAAGGGGATACTCTAACCC
1 GGGGATACTCCAACCCCGTTATTTCT-GAGGGGATACTCTAACCC
1064222 CGTTATTATC
Statistics
Matches: 106, Mismatches: 12, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
78 7 0.07
79 93 0.88
80 4 0.04
81 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.31
Consensus pattern (78 bp):
GGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCTAACCCGATTCTATTTCCAAATCATCG
ATTTCTCACAACT
Found at i:1073916 original size:19 final size:20
Alignment explanation
Indices: 1073887--1073936 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
1073877 CAATTCAGTG
*
1073887 TGTATCAATACCAAG-AACA
1 TGTATCGATACCAAGCAACA
* * *
1073906 TGTATTGATACTAAGCAATA
1 TGTATCGATACCAAGCAACA
1073926 TGTATCGATAC
1 TGTATCGATAC
1073937 AATGTATCGA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (20 bp):
TGTATCGATACCAAGCAACA
Found at i:1073943 original size:13 final size:13
Alignment explanation
Indices: 1073925--1073949 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1073915 ACTAAGCAAT
1073925 ATGTATCGATACA
1 ATGTATCGATACA
1073938 ATGTATCGATAC
1 ATGTATCGATAC
1073950 TAAACTGGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1074873 original size:19 final size:18
Alignment explanation
Indices: 1074844--1074889 Score: 74
Period size: 19 Copynumber: 2.5 Consensus size: 18
1074834 ACAACAAGAA
1074844 AAACAAATTTCATTCATC
1 AAACAAATTTCATTCATC
1074862 AAACATAATTTCATTCATC
1 AAACA-AATTTCATTCATC
*
1074881 AAAGAAATT
1 AAACAAATT
1074890 CATGTACAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 9 0.35
19 17 0.65
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.33
Consensus pattern (18 bp):
AAACAAATTTCATTCATC
Found at i:1079157 original size:79 final size:79
Alignment explanation
Indices: 1079064--1079317 Score: 291
Period size: 79 Copynumber: 3.2 Consensus size: 79
1079054 GAGATAGTAA
**
1079064 CGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCTAATTGTGAAAAATTGATGA
1 CGGGGTTGGAGTATCCCC-TGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGA
*
1079129 TTTGA-AAATAAAAC
65 TTTTAGAAATAAAAC
* * * * *
1079143 CGGGGTTGGAGTATCCCCTCGGAGAA-AACGGGGTTTGAGTATCCCCGATTATGAGAAATTAAT-
1 CGGGGTTGGAGTATCCCCT--GAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATG
*
1079206 ATTTTAGAAATAAAGC
64 ATTTTAGAAATAAAAC
*** * * *
1079222 CGGGGTTGGAGTATCCCC-GATGTTAATGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTT
1 CGGGGTTGGAGTATCCCCTGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATG-A
*
1079286 TTTTAGAAATAAAAT
65 TTTTAGAAATAAAAC
*
1079301 CGGAGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
1079318 TGATTATAGA
Statistics
Matches: 147, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
76 2 0.01
77 31 0.21
78 6 0.04
79 104 0.71
80 4 0.03
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.29
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCTGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGAT
TTTAGAAATAAAAC
Found at i:1079368 original size:51 final size:53
Alignment explanation
Indices: 1079252--1079373 Score: 169
Period size: 51 Copynumber: 2.3 Consensus size: 53
1079242 TGTTAATGGG
* * *
1079252 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTTGAGAAATAAAATCGGA
*
1079305 GTTGGAGTATCCCTGATTAT-AGAAAATTAGTG-TTTTGA-AAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGA-AAAATTAGTGTTTTTGAGAAATAAAATCGGA
*
1079356 GTTGGAATATCCCCGATT
1 GTTGGAGTATCCCCGATT
1079374 GCGGAGAATT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
51 29 0.47
52 6 0.10
53 27 0.44
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.34
Consensus pattern (53 bp):
GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTTGAGAAATAAAATCGGA
Found at i:1081764 original size:21 final size:21
Alignment explanation
Indices: 1081740--1081781 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1081730 GTATCGATAC
*
1081740 AATGTATCGATATATTTCCTT
1 AATGTATCGATACATTTCCTT
1081761 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
1081782 GACAGTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.45
Consensus pattern (21 bp):
AATGTATCGATACATTTCCTT
Found at i:1081831 original size:19 final size:18
Alignment explanation
Indices: 1081807--1081927 Score: 93
Period size: 19 Copynumber: 7.0 Consensus size: 18
1081797 GCGATACATG
1081807 GTATCGATACAAAACTTAT
1 GTATCGATAC-AAACTTAT
1081826 GTATCGATAC--A--T-T
1 GTATCGATACAAACTTAT
1081839 GTATCGATACAACACTTAT
1 GTATCGATACAA-ACTTAT
1081858 GTATCGATAC--A--T-T
1 GTATCGATACAAACTTAT
1081871 GTATCGATACAACACTTAT
1 GTATCGATACAA-ACTTAT
* *
1081890 GTATCGATACATTTACTGAAT
1 GTATCGATACA--AACT-TAT
1081911 GTATCGATACAAA-TTAT
1 GTATCGATACAAACTTAT
1081928 TGAAAATCAA
Statistics
Matches: 83, Mismatches: 4, Indels: 32
0.70 0.03 0.27
Matches are distributed among these distances:
13 22 0.27
14 2 0.02
16 4 0.05
17 2 0.02
18 3 0.04
19 34 0.41
20 3 0.04
21 13 0.16
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (18 bp):
GTATCGATACAAACTTAT
Found at i:1081843 original size:13 final size:13
Alignment explanation
Indices: 1081825--1081881 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
1081815 ACAAAACTTA
1081825 TGTATCGATACAT
1 TGTATCGATACAT
1081838 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
1081856 ATGTATCGATACAT
1 -TGTATCGATACAT
1081870 TGTATCGATACA
1 TGTATCGATACA
1081882 ACACTTATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1081843 original size:32 final size:32
Alignment explanation
Indices: 1081798--1081902 Score: 192
Period size: 32 Copynumber: 3.3 Consensus size: 32
1081788 AGCTTCGTAG
* *
1081798 CGATACATGGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
1081830 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
1081862 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
1081894 CGATACATT
1 CGATACATT
1081903 TACTGAATGT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 71 1.00
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.33
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:1081983 original size:21 final size:21
Alignment explanation
Indices: 1081959--1082014 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
1081949 GTTGGGACCT
* *
1081959 TGTATTGATACATTCTACAAA
1 TGTATCGATACATTATACAAA
1081980 TGTATCGATACATTATACAAA
1 TGTATCGATACATTATACAAA
1082001 TGTATCGATACATT
1 TGTATCGATACATT
1082015 TGGATAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTATACAAA
Found at i:1082339 original size:19 final size:20
Alignment explanation
Indices: 1082295--1082347 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
1082285 CTGCCAATCT
**
1082295 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
1082315 CATGTATCGATACAATT-AA
1 CATGTATCGATACAATTGAA
1082334 CATGTATCGATACA
1 CATGTATCGATACA
1082348 TCTGGGTGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:1086191 original size:520 final size:519
Alignment explanation
Indices: 1085206--1086244 Score: 1731
Period size: 520 Copynumber: 2.0 Consensus size: 519
1085196 GAGTTGTTAC
*
1085206 TGAAAGCTCAAGGAATAATGAACCAAGAGGGGGGTGAATTGGTTCTTTTTGAATTTTGTAAATTT
1 TGAAAGCTCAAGGAATAATGAACCAAGAGGGGGGTGAATTGGTTCTTTTCGAATTTTGTAAATTT
*
1085271 TGAAAGAATTGGTGCAAAATAATTCGAAAGACAAAAGGAAAAAATAATCGACACAAAGGTTTATA
66 TGAAAGAATTGGTGCAAAATAATTCGAAAGACAAAAGGAAAAAATAATCGACACAAAGATTTATA
* * * *
1085336 GAGGTTTGGTCCAAATCGGCACCTACGTCCTCTCTCCTTGACACTTCCTTCCGAGTGGTTATCCA
131 GAGGTTCGGTCCAAATCGGCACCTACGTCCTCTCTCCTTCACACATCCTTCCGAGTGATTATCCA
*
1085401 ATTCACTACTAGAATTGATTACCTTTAAGGCAAAGGTATAACCTTACAATCCTTATCTTTTAAAG
196 ATTCACTACTACAATTGATTACCTTTAAGGCAAAGGTATAACCTTACAATCCTTATCTTTTAAAG
* *
1085466 GCTAAGATAATAACCTCTTAATCTTTTCAAGAACTATAACCCAAGTTCCTAAGAGATTAAAACTC
261 GCTAAGATAACAACCTCTTAATCTCTTCAAGAACTATAACCCAAGTTCCTAAGAGATTAAAACTC
* *
1085531 TTCGGTTGAACACAACCTTATCTAGACAAAGAATTTGTACAAACAAGAATTACCTCTAAGTAAGC
326 TTCGGTTGAACACAACCTTAACTAGACAAAGAATTTGTACAAACAAGAAGTACCTCTAAGTAAGC
* *
1085596 TGGTGTTTGTGAAAGAATAAGCTTAAAACAAATACAAAACAACTTTCGTAAAATAACAACAATGA
391 TGGTGTTTGTGAAACAATAAGCTCAAAACAAATACAAAACAACTTTCGTAAAATAACAACAATGA
* *
1085661 AAGCAAAAGCTCTTTGAAAATGAGAAAACTAATTAAACTTTGAAAGCTTGAACTCTTTATGTCT
456 AAGAAAAAGCTCTTTGAAAATGAGAAAACTAATAAAACTTTGAAAGCTTGAACTCTTTATGTCT
*
1085725 TGAAAGCTCAAGGAATAATGAACCAAGAGGGGGGTGGATTGGTTCTTTTCGAATTTTGCT-AATT
1 TGAAAGCTCAAGGAATAATGAACCAAGAGGGGGGTGAATTGGTTCTTTTCGAATTTTG-TAAATT
* * *
1085789 TTGAAAGAATTGGTGTAAAATTATTCGAAAGACAAAAGGAAGAAATAATCGACACAAAGATTTAT
65 TTGAAAGAATTGGTGCAAAATAATTCGAAAGACAAAAGGAAAAAATAATCGACACAAAGATTTAT
* * * *
1085854 AGAGGTTCGGTCCAAATTGGCCCCTACGTCCTCTCT-TTTCATCACATCCTTGTCGAGTGATTAT
130 AGAGGTTCGGTCCAAATCGGCACCTACGTCCTCTCTCCTTCA-CACATCCTT-CCGAGTGATTAT
*
1085918 CCAATTCACTACTACAATTGATTACCTTTAAGGCAAAGGTATAACTTTACAATCCTTATCTTTTA
193 CCAATTCACTACTACAATTGATTACCTTTAAGGCAAAGGTATAACCTTACAATCCTTATCTTTTA
* *
1085983 AAGGCTAAGATAACAACCTCTTAATCTCTTCAAGAACTATACCCCAAGTTCCTAAGAGATTAATA
258 AAGGCTAAGATAACAACCTCTTAATCTCTTCAAGAACTATAACCCAAGTTCCTAAGAGATTAAAA
*
1086048 CTCTTCGGTTGAACACAACCTTAACTAGACAAAGAATTTGTACAAACAAGAAGTGCCTCTAAGTA
323 CTCTTCGGTTGAACACAACCTTAACTAGACAAAGAATTTGTACAAACAAGAAGTACCTCTAAGTA
* * * * *
1086113 GGCTGGTGTTTGTGAAACAATAAGCTCAAAACAAATACTAAAGAGCTTTCGTAAAATGACAACAA
388 AGCTGGTGTTTGTGAAACAATAAGCTCAAAACAAATACAAAACAACTTTCGTAAAATAACAACAA
* *
1086178 TGAAAGAAAAAGCTCTTTGAAAATGAGAAAACTAATAAAACTTTGAAAGCTTGAATTCTTTGTGT
453 TGAAAGAAAAAGCTCTTTGAAAATGAGAAAACTAATAAAACTTTGAAAGCTTGAACTCTTTATGT
1086243 CT
518 CT
1086245 CTTTGTTGAT
Statistics
Matches: 483, Mismatches: 34, Indels: 5
0.93 0.07 0.01
Matches are distributed among these distances:
518 3 0.01
519 162 0.34
520 318 0.66
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (519 bp):
TGAAAGCTCAAGGAATAATGAACCAAGAGGGGGGTGAATTGGTTCTTTTCGAATTTTGTAAATTT
TGAAAGAATTGGTGCAAAATAATTCGAAAGACAAAAGGAAAAAATAATCGACACAAAGATTTATA
GAGGTTCGGTCCAAATCGGCACCTACGTCCTCTCTCCTTCACACATCCTTCCGAGTGATTATCCA
ATTCACTACTACAATTGATTACCTTTAAGGCAAAGGTATAACCTTACAATCCTTATCTTTTAAAG
GCTAAGATAACAACCTCTTAATCTCTTCAAGAACTATAACCCAAGTTCCTAAGAGATTAAAACTC
TTCGGTTGAACACAACCTTAACTAGACAAAGAATTTGTACAAACAAGAAGTACCTCTAAGTAAGC
TGGTGTTTGTGAAACAATAAGCTCAAAACAAATACAAAACAACTTTCGTAAAATAACAACAATGA
AAGAAAAAGCTCTTTGAAAATGAGAAAACTAATAAAACTTTGAAAGCTTGAACTCTTTATGTCT
Found at i:1086585 original size:19 final size:19
Alignment explanation
Indices: 1086541--1086594 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
1086531 CTGCCAATCT
*
1086541 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATAG-C
1086561 CATGTATCGATACAATAAG-
1 CATGTATCGATACAAT-AGC
1086580 CATGTATCGATACAA
1 CATGTATCGATACAA
1086595 CATATCAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 15 0.47
20 16 0.50
21 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATAGC
Found at i:1089102 original size:13 final size:13
Alignment explanation
Indices: 1089084--1089123 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
1089074 ATAGTACCTT
1089084 ATGTATCGATACA
1 ATGTATCGATACA
1089097 ATGTATCGATACA
1 ATGTATCGATACA
*
1089110 ATGTGTCGATACA
1 ATGTATCGATACA
1089123 A
1 A
1089124 GGAATATTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1095392 original size:20 final size:19
Alignment explanation
Indices: 1095348--1095399 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
1095338 TGCCAATCTC
* *
1095348 ATGTATCGATACAATGAGC
1 ATGTATCGATACAAAGAGA
*
1095367 ATGTATCGATACAAAGCATA
1 ATGTATCGATACAAAG-AGA
*
1095387 ATGTATTGATACA
1 ATGTATCGATACA
1095400 TCTGGGTGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.29
Consensus pattern (19 bp):
ATGTATCGATACAAAGAGA
Found at i:1095866 original size:20 final size:20
Alignment explanation
Indices: 1095835--1095889 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
1095825 TCCTGTAGCC
* *
1095835 ATGTATCAATACAATTCGTA
1 ATGTATCGATACAATTCATA
*
1095855 ATGTTTCGATACAATTCATA
1 ATGTATCGATACAATTCATA
1095875 ATGTATCGATA-AATT
1 ATGTATCGATACAATT
1095890 GATTTGAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 4 0.13
20 27 0.87
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACAATTCATA
Found at i:1095969 original size:20 final size:20
Alignment explanation
Indices: 1095927--1095977 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
1095917 GTTACAAGCA
*
1095927 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATTCACC
*
1095947 ATGTATCGATAC-ATTGTACC
1 ATGTATCGATACAATT-CACC
*
1095967 ATGTATGGATA
1 ATGTATCGATA
1095978 GAAACAGTGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 3 0.11
20 24 0.89
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATTCACC
Found at i:1096034 original size:20 final size:20
Alignment explanation
Indices: 1096009--1096063 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
1095999 CTGCCAATCT
***
1096009 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTAAA
1096029 CATGTATCGATACAA-TAAA
1 CATGTATCGATACAATTAAA
1096048 CATGTATCGATACAAT
1 CATGTATCGATACAAT
1096064 GTATTGATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTAAA
Found at i:1096830 original size:28 final size:28
Alignment explanation
Indices: 1096799--1096855 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
1096789 GAACACATGC
1096799 ATGAGGCATCATATCGAGGGTTATGCTT
1 ATGAGGCATCATATCGAGGGTTATGCTT
1096827 ATGAGGCATCATATCGAGGGTTATGCTT
1 ATGAGGCATCATATCGAGGGTTATGCTT
1096855 A
1 A
1096856 ACAAAGAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (28 bp):
ATGAGGCATCATATCGAGGGTTATGCTT
Found at i:1099261 original size:13 final size:13
Alignment explanation
Indices: 1099243--1099267 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1099233 TACCAAGAAC
1099243 ATGTATCGATACA
1 ATGTATCGATACA
1099256 ATGTATCGATAC
1 ATGTATCGATAC
1099268 TAAGCAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1100510 original size:79 final size:79
Alignment explanation
Indices: 1100379--1100660 Score: 293
Period size: 79 Copynumber: 3.6 Consensus size: 79
1100369 CTCCCTGATG
* * * * * * *
1100379 AAAAATTTAATATTTTGGAGATAAAAATGGGGGTGGAGTATCCCCTTGAAAATAATAGGGTTGGA
1 AAAAAATTGATATTTTGGAAATAAAATTGAGGTTGGAGTATCCCCTCGAAAATAATAGGGTTGGA
*
1100444 ATATCCCCGATTGT
66 GTATCCCCGATTGT
* * *
1100458 AAAAAATTGATATTTTAGAAATAAAATTGAGGTTGGAGTACCCCCTCGAAAATAA-CGGGATTGG
1 AAAAAATTGATATTTTGGAAATAAAATTGAGGTTGGAGTATCCCCTCGAAAATAATAGGG-TTGG
1100522 AGTATCCCCGATTGT
65 AGTATCCCCGATTGT
*** * * *
1100537 GGCAAATTGACATTTTGGAAATAAAA-TCAGGGTTGGAGTATCCCCTCGAAAATAATGGGGTTAG
1 AAAAAATTGATATTTTGGAAATAAAATTGA-GGTTGGAGTATCCCCTCGAAAATAATAGGGTT-G
*
1100601 G-GTATCCCCGATGGT
64 GAGTATCCCCGATTGT
** * * *
1100616 GGAAAATTGATGTTTTGGAAATAAAA-TCAGGGTTAGAGTATCCCC
1 AAAAAATTGATATTTTGGAAATAAAATTGA-GGTTGGAGTATCCCC
1100661 GATTGTGGAA
Statistics
Matches: 175, Mismatches: 24, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
78 5 0.03
79 165 0.94
80 5 0.03
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.28
Consensus pattern (79 bp):
AAAAAATTGATATTTTGGAAATAAAATTGAGGTTGGAGTATCCCCTCGAAAATAATAGGGTTGGA
GTATCCCCGATTGT
Found at i:1100659 original size:51 final size:51
Alignment explanation
Indices: 1100594--1100694 Score: 166
Period size: 51 Copynumber: 2.0 Consensus size: 51
1100584 GAAAATAATG
* * *
1100594 GGGTTAGGGTATCCCCGATGGTGGAAAATTGATGTTTTGGAAATAAAATCA
1 GGGTTAGAGTATCCCCGATGGTGGAAAATCGATATTTTGGAAATAAAATCA
*
1100645 GGGTTAGAGTATCCCCGATTGTGGAAAATCGATATTTTGGAAATAAAATC
1 GGGTTAGAGTATCCCCGATGGTGGAAAATCGATATTTTGGAAATAAAATC
1100695 TGGGCAGGAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.30
Consensus pattern (51 bp):
GGGTTAGAGTATCCCCGATGGTGGAAAATCGATATTTTGGAAATAAAATCA
Found at i:1100845 original size:79 final size:80
Alignment explanation
Indices: 1100729--1101059 Score: 314
Period size: 79 Copynumber: 4.2 Consensus size: 80
1100719 AAAATTAGTG
* * *
1100729 TTTTAGAAATAAAAACCGAGGTTGGAGTATCACCTCAAAAATAATAGGGTTGGAGTATCCTC-GA
1 TTTTAGAAAT-AAAACCGAGGTTGGAGTATCCCCTCAAAAATAACAGGGTTAGAGTATCCTCTGA
*
1100793 TGGTGGAAAATCGATA
65 TGGTGAAAAATCGATA
* * * *
1100809 TTTTGGAAATAAAACTGAGGTTGGAGTATCCCCTCAAAAATAACGGGGTTAGAGCAT-CTCTGAT
1 TTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTCAAAAATAACAGGGTTAGAGTATCCTCTGAT
* * *
1100873 TGTGAAAAAT-TAGTG
66 GGTGAAAAATCGA-TA
* * * * * ** *
1100888 TTTTGGAAATAAAACCGGGGTTAGAGTATCTCTTCGGAAATAACGGGGTTAGAGTATCC-CTGAT
1 TTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTCAAAAATAACAGGGTTAGAGTATCCTCTGAT
* * *
1100952 TGTGAAAAATCAATG
66 GGTGAAAAATCGATA
* * * * ** * *
1100967 TTTTAGAAATGAAGCTGGGGTTGGAGTATCCCCTCGGAAATAATAGGGTTGGAGTATCCTC-GAT
1 TTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTCAAAAATAACAGGGTTAGAGTATCCTCTGAT
*
1101031 GGTGGAAAATCTG-TA
66 GGTGAAAAATC-GATA
1101046 TTTTAGAAATAAAA
1 TTTTAGAAATAAAA
1101060 ACATGAATGA
Statistics
Matches: 209, Mismatches: 36, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
78 4 0.02
79 193 0.92
80 12 0.06
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (80 bp):
TTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTCAAAAATAACAGGGTTAGAGTATCCTCTGAT
GGTGAAAAATCGATA
Found at i:1101008 original size:158 final size:159
Alignment explanation
Indices: 1100719--1101061 Score: 388
Period size: 158 Copynumber: 2.2 Consensus size: 159
1100709 TCGATTATGG
* * *
1100719 AAAATTAGTGTTTTAGAAATAAAAACCGAGGTTGGAGTATCACCTCAAAAATAATAGGGTTGGAG
1 AAAATTAGTGTTTTAGAAATAAAAACCGAGGTTAGAGTATCACCTCAAAAATAACAGGGTTAGAG
* * *
1100784 TATCCTCGATGGTGGAAAATCGATATTTTGGAAATAAAACTGAGGTTGGAGTATCCCCTCAAAAA
66 TATCCTCGATGGTGAAAAATCAATATTTTAGAAATAAAACTGAGGTTGGAGTATCCCCTCAAAAA
1100849 TAACGGGGTTAGAGCATCTCTGATTGTGA
131 TAACGGGGTTAGAGCATCTCTGATTGTGA
* * * * ** *
1100878 AAAATTAGTGTTTTGGAAAT-AAAACCGGGGTTAGAGTATCTCTTCGGAAATAACGGGGTTAGAG
1 AAAATTAGTGTTTTAGAAATAAAAACCGAGGTTAGAGTATCACCTCAAAAATAACAGGGTTAGAG
* * * * * **
1100942 TATCC-CTGATTGTGAAAAATCAATGTTTTAGAAATGAAGCTGGGGTTGGAGTATCCCCTCGGAA
66 TATCCTC-GATGGTGAAAAATCAATATTTTAGAAATAAAACTGAGGTTGGAGTATCCCCTCAAAA
** * * * *
1101006 ATAATAGGGTTGGAGTATC-CTCGATGGTGG
130 ATAACGGGGTTAGAGCATCTCT-GATTGTGA
*
1101036 AAAATCT-GTATTTTAGAAATAAAAAC
1 AAAAT-TAGTGTTTTAGAAATAAAAAC
1101062 ATGAATGAAA
Statistics
Matches: 152, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
157 3 0.02
158 124 0.82
159 25 0.16
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.29
Consensus pattern (159 bp):
AAAATTAGTGTTTTAGAAATAAAAACCGAGGTTAGAGTATCACCTCAAAAATAACAGGGTTAGAG
TATCCTCGATGGTGAAAAATCAATATTTTAGAAATAAAACTGAGGTTGGAGTATCCCCTCAAAAA
TAACGGGGTTAGAGCATCTCTGATTGTGA
Found at i:1103493 original size:50 final size:50
Alignment explanation
Indices: 1103439--1103534 Score: 165
Period size: 50 Copynumber: 1.9 Consensus size: 50
1103429 GATGCATCTA
* *
1103439 GGTAAAACCTAGAATGTATCGATATAATGAAGAATATATCGATACATCCG
1 GGTAAAACCTAAAATGTATCGATACAATGAAGAATATATCGATACATCCG
*
1103489 GGTAAAACCTAAAATGTATCGATACAATGAAGAATGTATCGATACA
1 GGTAAAACCTAAAATGTATCGATACAATGAAGAATATATCGATACA
1103535 AATTGTGGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.44, C:0.14, G:0.18, T:0.25
Consensus pattern (50 bp):
GGTAAAACCTAAAATGTATCGATACAATGAAGAATATATCGATACATCCG
Found at i:1104269 original size:42 final size:42
Alignment explanation
Indices: 1104210--1104511 Score: 200
Period size: 42 Copynumber: 7.5 Consensus size: 42
1104200 AAAAGGAGTA
* *
1104210 CATCCTGCTCTTTGAGGATAAAGGAAAAAAGGAAATAAAATG
1 CATCCTACTCTTTGAGGACAAAGGAAAAAAGGAAATAAAATG
* * * **
1104252 CATCTTACTCTTCGAGGACAAAGGAAAAGAAAGAAAT-AGGT-
1 CATCCTACTCTTTGAGGACAAAGGAAAA-AAGGAAATAAAATG
* * * *
1104293 CATGCT-C-C-TTGAAGACAAAAG-AAAAAGG-AGT---A--
1 CATCCTACTCTTTGAGGACAAAGGAAAAAAGGAAATAAAATG
* * ** *
1104325 CATCCCATTCTTCAAGGACAAAGGAAAAAAGAAAATAAAATG
1 CATCCTACTCTTTGAGGACAAAGGAAAAAAGGAAATAAAATG
* * * *
1104367 CATCTTGCTCTTTAAGGACAAAGGAAAAGAAGGAAATTAAATG
1 CATCCTACTCTTTGAGGACAAAGGAAAA-AAGGAAATAAAATG
** * * * *
1104410 TGTCCTACTCTTTGAGGAGAAAGGAGAAAAGAAAATAAAGTG
1 CATCCTACTCTTTGAGGACAAAGGAAAAAAGGAAATAAAATG
** * *
1104452 TGTCCTGA-TCTTTGAGGACAAAGG-GAAAAGGAAATAAAGTG
1 CATCCT-ACTCTTTGAGGACAAAGGAAAAAAGGAAATAAAATG
*
1104493 CATCCTACTCTTTGGGGAC
1 CATCCTACTCTTTGAGGAC
1104512 TAGAAGGTGC
Statistics
Matches: 200, Mismatches: 46, Indels: 29
0.73 0.17 0.11
Matches are distributed among these distances:
32 4 0.02
34 1 0.00
35 11 0.05
36 9 0.05
37 5 0.03
38 10 0.05
39 1 0.00
40 3 0.01
41 34 0.17
42 81 0.41
43 41 0.20
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.21
Consensus pattern (42 bp):
CATCCTACTCTTTGAGGACAAAGGAAAAAAGGAAATAAAATG
Found at i:1104324 original size:115 final size:115
Alignment explanation
Indices: 1104137--1104403 Score: 347
Period size: 115 Copynumber: 2.3 Consensus size: 115
1104127 AATGAGCATG
* * * * *
1104137 TCTTGCTCTTCGAGGACAAAGGAAAAAAGAATGAAATGAGTCCTACTCTTTGAGGACAAAGGAAA
1 TCTTGCTCTTCGAGGACAAAGG--AAAAGAAAGAAATGAGTCATACTCCTTGAAGACAAAAGAAA
** ** * *
1104202 AAGGAGTACATCCTGCTCTTTGAGGATAAAGGAAAAAAGGAAATAAAATGCA
64 AAGGAGTACATCCCACTCTTCAAGGACAAAGGAAAAAAGAAAATAAAATGCA
* *
1104254 TCTTACTCTTCGAGGACAAAGGAAAAGAAAGAAAT-AGGTCATGCTCCTTGAAGACAAAAGAAAA
1 TCTTGCTCTTCGAGGACAAAGGAAAAGAAAGAAATGA-GTCATACTCCTTGAAGACAAAAGAAAA
*
1104318 AGGAGTACATCCCATTCTTCAAGGACAAAGGAAAAAAGAAAATAAAATGCA
65 AGGAGTACATCCCACTCTTCAAGGACAAAGGAAAAAAGAAAATAAAATGCA
** *
1104369 TCTTGCTCTTTAAGGACAAAGGAAAAGAAGGAAAT
1 TCTTGCTCTTCGAGGACAAAGGAAAAGAAAGAAAT
1104404 TAAATGTGTC
Statistics
Matches: 131, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
114 1 0.01
115 109 0.83
117 21 0.16
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.19
Consensus pattern (115 bp):
TCTTGCTCTTCGAGGACAAAGGAAAAGAAAGAAATGAGTCATACTCCTTGAAGACAAAAGAAAAA
GGAGTACATCCCACTCTTCAAGGACAAAGGAAAAAAGAAAATAAAATGCA
Found at i:1104505 original size:41 final size:42
Alignment explanation
Indices: 1104339--1104511 Score: 174
Period size: 41 Copynumber: 4.1 Consensus size: 42
1104329 CCATTCTTCA
* * * *
1104339 AGGACAAAGGAAAAAAGAAAATAAAATGCATCTTGCTCTTTA
1 AGGACAAAGGAAAAAAGAAAATAAAGTGCATCCTACTCTTTG
*
1104381 AGGACAAAGGAAAAGAAGGAAATTAAATGTG--TCCTACTCTTTG
1 AGGACAAAGGAAAA-AA-GAAAATAAA-GTGCATCCTACTCTTTG
* * **
1104424 AGGAGAAAGGAGAAAAGAAAATAAAGTGTGTCCTGA-TCTTTG
1 AGGACAAAGGAAAAAAGAAAATAAAGTGCATCCT-ACTCTTTG
* *
1104466 AGGACAAAGG-GAAAAGGAAATAAAGTGCATCCTACTCTTTG
1 AGGACAAAGGAAAAAAGAAAATAAAGTGCATCCTACTCTTTG
*
1104507 GGGAC
1 AGGAC
1104512 TAGAAGGTGC
Statistics
Matches: 111, Mismatches: 13, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
40 4 0.04
41 38 0.34
42 35 0.32
43 24 0.22
44 8 0.07
45 2 0.02
ACGTcount: A:0.43, C:0.12, G:0.24, T:0.21
Consensus pattern (42 bp):
AGGACAAAGGAAAAAAGAAAATAAAGTGCATCCTACTCTTTG
Found at i:1110532 original size:51 final size:50
Alignment explanation
Indices: 1110423--1110535 Score: 129
Period size: 50 Copynumber: 2.2 Consensus size: 50
1110413 ACAAGCAGTA
* * *
1110423 AATGTATCGATACATCTAGATTTTTTACTAAATGTATCGATACATTTATC
1 AATGTATCGATACATCTAGATATTTTACCAAATGTATCAATACATTTATC
* * * * *
1110473 ATTATATCGATACATCTAGGTATTTTACCCAGATGTATCAATACA-TTATTT
1 AATGTATCGATACATCTAGATATTTTA-CCAAATGTATCAATACATTTA-TC
1110524 AATGTATCGATA
1 AATGTATCGATA
1110536 TATGCAGGCA
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
50 26 0.51
51 25 0.49
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.41
Consensus pattern (50 bp):
AATGTATCGATACATCTAGATATTTTACCAAATGTATCAATACATTTATC
Found at i:1120849 original size:1 final size:1
Alignment explanation
Indices: 1120845--1120913 Score: 57
Period size: 1 Copynumber: 69.0 Consensus size: 1
1120835 AAACATCTTT
* * * * * * * **
1120845 AAAAAAAACACAAAAAAATAAAAAAAAAAAATAAAAAACAAAAAAAAACAAAAGAAAAACCAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1120910 AAAA
1 AAAA
1120914 GGGGTCCGGA
Statistics
Matches: 52, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.87, C:0.09, G:0.01, T:0.03
Consensus pattern (1 bp):
A
Found at i:1120883 original size:30 final size:30
Alignment explanation
Indices: 1120847--1120903 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
1120837 ACATCTTTAA
* *
1120847 AAAAAACACAAAAAAATAAAAAAAAAAAAT
1 AAAAAACAAAAAAAAACAAAAAAAAAAAAT
*
1120877 AAAAAACAAAAAAAAACAAAAGAAAAA
1 AAAAAACAAAAAAAAACAAAAAAAAAA
1120904 CCAAAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.88, C:0.07, G:0.02, T:0.04
Consensus pattern (30 bp):
AAAAAACAAAAAAAAACAAAAAAAAAAAAT
Found at i:1120897 original size:22 final size:21
Alignment explanation
Indices: 1120845--1120913 Score: 77
Period size: 21 Copynumber: 3.2 Consensus size: 21
1120835 AAACATCTTT
* *
1120845 AAAAAAAACACAAAAAA-ATAA
1 AAAAAAAAAAGAAAAAACA-AA
*
1120866 AAAAAAAAAATAAAAAACAAA
1 AAAAAAAAAAGAAAAAACAAA
*
1120887 AAAAAACAAAAGAAAAACCAAA
1 AAAAAA-AAAAGAAAAAACAAA
1120909 AAAAA
1 AAAAA
1120914 GGGGTCCGGA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
21 23 0.55
22 19 0.45
ACGTcount: A:0.87, C:0.09, G:0.01, T:0.03
Consensus pattern (21 bp):
AAAAAAAAAAGAAAAAACAAA
Found at i:1120902 original size:21 final size:20
Alignment explanation
Indices: 1120845--1120913 Score: 86
Period size: 20 Copynumber: 3.4 Consensus size: 20
1120835 AAACATCTTT
* *
1120845 AAAAAAAACACAAAAAAATA
1 AAAAAAAACAAAAAAAAACA
1120865 AAAAAAAA-AAATAAAAAACA
1 AAAAAAAACAAA-AAAAAACA
*
1120885 AAAAAAAACAAAAGAAAAACC
1 AAAAAAAACAAAA-AAAAACA
1120906 AAAAAAAA
1 AAAAAAAA
1120914 GGGGTCCGGA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
19 2 0.05
20 24 0.56
21 17 0.40
ACGTcount: A:0.87, C:0.09, G:0.01, T:0.03
Consensus pattern (20 bp):
AAAAAAAACAAAAAAAAACA
Found at i:1122405 original size:27 final size:27
Alignment explanation
Indices: 1122350--1122412 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
1122340 TATAACTCTC
*
1122350 TGGCACCCTTTTAAGTCCAAGACTCCA
1 TGGCACCTTTTTAAGTCCAAGACTCCA
* *
1122377 TGGCACCTTTTTAAGTCCATA-ATTTCA
1 TGGCACCTTTTTAAGTCCA-AGACTCCA
1122404 TGGCACCTT
1 TGGCACCTT
1122413 CTCCTTTCTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (27 bp):
TGGCACCTTTTTAAGTCCAAGACTCCA
Found at i:1122450 original size:31 final size:31
Alignment explanation
Indices: 1122415--1122503 Score: 124
Period size: 31 Copynumber: 2.8 Consensus size: 31
1122405 GGCACCTTCT
*
1122415 CCTTTCTAAAGCCCACATAAGTCGGTGGCAA
1 CCTTTCTAAAGCCCACACAAGTCGGTGGCAA
* * *
1122446 CCTTTCTAAAGCCCACACAGGTCAGTGGTAA
1 CCTTTCTAAAGCCCACACAAGTCGGTGGCAA
*
1122477 CCTGTTCAAAAGCCCACACAAGTCGGT
1 CCT-TTCTAAAGCCCACACAAGTCGGT
1122504 TGCATTTATT
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 30 0.60
32 20 0.40
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.21
Consensus pattern (31 bp):
CCTTTCTAAAGCCCACACAAGTCGGTGGCAA
Found at i:1122761 original size:52 final size:52
Alignment explanation
Indices: 1122687--1122786 Score: 148
Period size: 52 Copynumber: 1.9 Consensus size: 52
1122677 TTCTTCTACA
* *
1122687 TCTTTAAGTCCAATATTGCTAGCTTTGAATCAGTACATTGGCACCTTTATCT
1 TCTTTAAGTCCAATATCGCTAGCCTTGAATCAGTACATTGGCACCTTTATCT
* *
1122739 TCTTTAAG-CCTAATATCGCTAGCCTTGAATCAGTATATTGGCATCTTT
1 TCTTTAAGTCC-AATATCGCTAGCCTTGAATCAGTACATTGGCACCTTT
1122787 TACATTCCTA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.05
52 41 0.95
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (52 bp):
TCTTTAAGTCCAATATCGCTAGCCTTGAATCAGTACATTGGCACCTTTATCT
Found at i:1122793 original size:114 final size:113
Alignment explanation
Indices: 1122516--1122786 Score: 330
Period size: 114 Copynumber: 2.4 Consensus size: 113
1122506 CATTTATTTA
* *
1122516 TAAGCCTAATATCGTTGGCCTCGAATCAGCATATTGGCACCTTTAGCATTTTTCTCATCTTTAAG
1 TAAGCCTAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTAGCATTCTTCTCATCTTTAAG
* * * *
1122581 CCAAATATCGCTGGCCTTGAATCAGTATATTGGTATCTTTACTATTCT
66 CCAAATATCGCTAGCCTTGAATCAGTACATTGGCACCTTTACTATTCT
* ** * * *
1122629 TAAGCCCAACGTCGTTGGCCTTAAATCAGCATATTGACACCTTTATCATTCTTCTACATCTTTAA
1 TAAGCCTAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTAGCATTCTTCT-CATCTTTAA
* * *
1122694 GTCC-AATATTGCTAGCTTTGAATCAGTACATTGGCACCTTTA-TCTTCTT
65 G-CCAAATATCGCTAGCCTTGAATCAGTACATTGGCACCTTTACTATTC-T
* * * *
1122743 TAAGCCTAATATCGCTAGCCTTGAATCAGTATATTGGCATCTTT
1 TAAGCCTAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTT
1122787 TACATTCCTA
Statistics
Matches: 131, Mismatches: 24, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
113 51 0.39
114 78 0.60
115 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (113 bp):
TAAGCCTAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTAGCATTCTTCTCATCTTTAAG
CCAAATATCGCTAGCCTTGAATCAGTACATTGGCACCTTTACTATTCT
Found at i:1122858 original size:52 final size:53
Alignment explanation
Indices: 1122760--1122890 Score: 137
Period size: 52 Copynumber: 2.5 Consensus size: 53
1122750 AATATCGCTA
* * ***
1122760 GCCTTGAATCAGTATATTGGCA-TCTTTTACATTCCTAAGCTCAATGTTGTTG
1 GCCTTGAATCAGCACATTGGCATTCTTTTACATTCCTAAGCTCAATGTCACTG
* *
1122812 GCCTTGAATCAACACATTGGCATTCTTTT-CATT-TTCAAG-TCTAATGTCACTG
1 GCCTTGAATCAGCACATTGGCATTCTTTTACATTCCT-AAGCTC-AATGTCACTG
1122864 G-CTGTGAATCAGCACATTGGCATTCTT
1 GCCT-TGAATCAGCACATTGGCATTCTT
1122891 CGCATATTTA
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
51 5 0.07
52 56 0.84
53 6 0.09
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (53 bp):
GCCTTGAATCAGCACATTGGCATTCTTTTACATTCCTAAGCTCAATGTCACTG
Found at i:1123815 original size:50 final size:51
Alignment explanation
Indices: 1123756--1123887 Score: 171
Period size: 50 Copynumber: 2.6 Consensus size: 51
1123746 CGATATGTTG
* *
1123756 TATCAATACATTTATTAATGTATCGATACATCT-GGATTTTTTACC-AAATA
1 TATCAATACATTTATCAATGTATCGATACATCTAGG-TATTTTACCTAAATA
* * * *
1123806 TATCAATACATTTATCATTGTATCGATACACCTAGGTATTTTACCTAGATG
1 TATCAATACATTTATCAATGTATCGATACATCTAGGTATTTTACCTAAATA
1123857 TATCAATACA-TTATGCAATGTATCGATACAT
1 TATCAATACATTTAT-CAATGTATCGATACAT
1123888 GCAGGCAAGT
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
50 42 0.59
51 29 0.41
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (51 bp):
TATCAATACATTTATCAATGTATCGATACATCTAGGTATTTTACCTAAATA
Found at i:1127956 original size:79 final size:78
Alignment explanation
Indices: 1127844--1128164 Score: 347
Period size: 79 Copynumber: 4.1 Consensus size: 78
1127834 TATCTTGGAG
* * * * *
1127844 ATAAAGACGGGGTTGGAGTATCCCCTCAGAAATAATAGGGCTGGAGTATCCCCGATTGTGGAAAA
1 ATAAA-ACCGGGTTGGAGTATCTCCTCAGAAATAACAGGGTTAGAGTATCCCCGATTGTGGAAAA
*
1127909 TCGATGTTCTAAAA
65 TCGATGTTTTAAAA
* * * * **
1127923 ATAAAACCGGATTTGAAGTATCTCCTC-GAAAATAACGGGGTTGGAGTATCCTGGATTGTGGAAA
1 ATAAAACCGG-GTTGGAGTATCTCCTCAG-AAATAACAGGGTTAGAGTATCCCCGATTGTGGAAA
* * *
1127987 ATCGGTATTTTAGAA
64 ATCGATGTTTTAAAA
** ** * *
1128002 ATAAAATTGGGGTTGGAGTATCTCCTCAGAAATAATGGGGTTAGAGTATCCTCGATTGTGAAAAA
1 ATAAAA-CCGGGTTGGAGTATCTCCTCAGAAATAACAGGGTTAGAGTATCCCCGATTGTGGAAAA
* *
1128067 TTGATGTTTTGAAA
65 TCGATGTTTTAAAA
* *
1128081 ATAAAACCAGGGTTGGAGTATCTCCTCAAAAATAACAGGGTTAGAGTATCCCCGATGGTGGAAAA
1 ATAAAACC-GGGTTGGAGTATCTCCTCAGAAATAACAGGGTTAGAGTATCCCCGATTGTGGAAAA
* *
1128146 TCGGTGTTTTAGAA
65 TCGATGTTTTAAAA
1128160 ATAAA
1 ATAAA
1128165 CACATGAATG
Statistics
Matches: 199, Mismatches: 38, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
78 5 0.03
79 191 0.96
80 3 0.02
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (78 bp):
ATAAAACCGGGTTGGAGTATCTCCTCAGAAATAACAGGGTTAGAGTATCCCCGATTGTGGAAAAT
CGATGTTTTAAAA
Found at i:1128142 original size:158 final size:158
Alignment explanation
Indices: 1127852--1128164 Score: 448
Period size: 158 Copynumber: 2.0 Consensus size: 158
1127842 AGATAAAGAC
* *
1127852 GGGGTTGGAGTATCCCCTCAGAAATAATAGGGCTGGAGTATCCCCGATTGTGGAAAATCGATGTT
1 GGGGTTGGAGTATCCCCTCAGAAATAATAGGGCTAGAGTATCCCCGATTGTGAAAAATCGATGTT
* * * * ** *
1127917 CTAAAAATAAAACCGGATTTGAAGTATCTCCTCGAAAATAACGGGGTTGGAGTATCCTGGATTGT
66 CTAAAAATAAAACCGGAGTTGAAGTATCTCCTCAAAAATAACAGGGTTAGAGTATCCCCGATGGT
1127982 GGAAAATCGGTATTTTAGAAATAAAATT
131 GGAAAATCGGTATTTTAGAAATAAAATT
* * * * *
1128010 GGGGTTGGAGTATCTCCTCAGAAATAATGGGGTTAGAGTATCCTCGATTGTGAAAAATTGATGTT
1 GGGGTTGGAGTATCCCCTCAGAAATAATAGGGCTAGAGTATCCCCGATTGTGAAAAATCGATGTT
* * *
1128075 TTGAAAATAAAACCAGG-GTTGGAGTATCTCCTCAAAAATAACAGGGTTAGAGTATCCCCGATGG
66 CTAAAAATAAAACC-GGAGTTGAAGTATCTCCTCAAAAATAACAGGGTTAGAGTATCCCCGATGG
*
1128139 TGGAAAATCGGTGTTTTAGAAATAAA
130 TGGAAAATCGGTATTTTAGAAATAAA
1128165 CACATGAATG
Statistics
Matches: 136, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
158 134 0.99
159 2 0.01
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (158 bp):
GGGGTTGGAGTATCCCCTCAGAAATAATAGGGCTAGAGTATCCCCGATTGTGAAAAATCGATGTT
CTAAAAATAAAACCGGAGTTGAAGTATCTCCTCAAAAATAACAGGGTTAGAGTATCCCCGATGGT
GGAAAATCGGTATTTTAGAAATAAAATT
Found at i:1134947 original size:30 final size:31
Alignment explanation
Indices: 1134881--1135088 Score: 178
Period size: 30 Copynumber: 6.7 Consensus size: 31
1134871 TCTCTTTTCG
1134881 AAGTCCACGACTCAGTGGCATCCCTTATTCA
1 AAGTCCACGACTCAGTGGCATCCCTTATTCA
*
1134912 AAGTCCACGACTCAGTGGCA-CACCTTCTT-A
1 AAGTCCACGACTCAGTGGCATC-CCTTATTCA
* * *
1134942 AAGTCCACGACTTAGTGGCATCCTTTTTTTTCA
1 AAGTCCACGACTCAGTGGCATCC--CTTATTCA
* * *
1134975 AAGTCCACAACTCTA-TGGCA-CCTTTTTCTTCA
1 AAGTCCACGACTC-AGTGGCATCC--CTTATTCA
** * *
1135007 AAGTCCATAACTCCGTGGCATCTCTT-TT-A
1 AAGTCCACGACTCAGTGGCATCCCTTATTCA
* * * *
1135036 AGGTCCACAACTTAGTGGCACCCCTTA-TCA
1 AAGTCCACGACTCAGTGGCATCCCTTATTCA
1135066 AAGTCCACGACTCAGTGGCATCC
1 AAGTCCACGACTCAGTGGCATCC
1135089 TTTTTCCTCA
Statistics
Matches: 146, Mismatches: 21, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
29 22 0.15
30 44 0.30
31 29 0.20
32 32 0.22
33 18 0.12
34 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (31 bp):
AAGTCCACGACTCAGTGGCATCCCTTATTCA
Found at i:1134959 original size:61 final size:59
Alignment explanation
Indices: 1134881--1135094 Score: 207
Period size: 61 Copynumber: 3.5 Consensus size: 59
1134871 TCTCTTTTCG
*
1134881 AAGTCCACGACTCAGTGGCATCCCTTATTCAAAGTCCACGACTCAGTGGCACACCTTCTTA
1 AAGTCCACGACTCAGTGGCATCCCTT-TTCAAAGTCCACAACTCAGTGGCAC-CCTTCTTA
* * *
1134942 AAGTCCACGACTTAGTGGCATCCTTTTTTTTCAAAGTCCACAACTCTA-TGGCACCTTTTTCTTC
1 AAGTCCACGACTCAGTGGCATCC---CTTTTCAAAGTCCACAACTC-AGTGGCACC--CTTCTT-
1135006 A
59 A
** * * * * * *
1135007 AAGTCCATAACTCCGTGGCATCTCTTTT-AAGGTCCACAACTTAGTGGCACCCCTTATCA
1 AAGTCCACGACTCAGTGGCATCCCTTTTCAAAGTCCACAACTCAGTGGCA-CCCTTCTTA
*
1135066 AAGTCCACGACTCAGTGGCATCCTTTTTC
1 AAGTCCACGACTCAGTGGCATCCCTTTTC
1135095 CTCAAACTCC
Statistics
Matches: 123, Mismatches: 20, Indels: 21
0.75 0.12 0.13
Matches are distributed among these distances:
59 24 0.20
60 4 0.03
61 39 0.32
62 7 0.06
63 22 0.18
64 8 0.07
65 19 0.15
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.30
Consensus pattern (59 bp):
AAGTCCACGACTCAGTGGCATCCCTTTTCAAAGTCCACAACTCAGTGGCACCCTTCTTA
Found at i:1135007 original size:32 final size:32
Alignment explanation
Indices: 1134908--1135552 Score: 379
Period size: 32 Copynumber: 20.9 Consensus size: 32
1134898 GCATCCCTTA
* * *
1134908 TTCAAAGTCCACGACTCAGTGGCACAC--CTTC
1 TTCAAAGTCCACAACTCTGTGGCAC-CTTTTTC
* *
1134939 TT-AAAGTCCACGACT-TAGTGGCATCCTTTTTT
1 TTCAAAGTCCACAACTCT-GTGGCA-CCTTTTTC
*
1134971 TTCAAAGTCCACAACTCTATGGCACCTTTTTC
1 TTCAAAGTCCACAACTCTGTGGCACCTTTTTC
* * * *
1135003 TTCAAAGTCCATAACTCCGTGGCATC-TCTT-
1 TTCAAAGTCCACAACTCTGTGGCACCTTTTTC
* **
1135033 TT-AAGGTCCACAACT-TAGTGGCACC-CCTT-
1 TTCAAAGTCCACAACTCT-GTGGCACCTTTTTC
* * *
1135062 ATCAAAGTCCACGACTCAGTGGCATCCTTTTTC
1 TTCAAAGTCCACAACTCTGTGGCA-CCTTTTTC
* * * *
1135095 CTCAAACTCCACAACTTTGAGGCACCTTTTTC
1 TTCAAAGTCCACAACTCTGTGGCACCTTTTTC
* *
1135127 TTCAAAGTCCATAACT-TCGTGGCACATTTTTC
1 TTCAAAGTCCACAACTCT-GTGGCACCTTTTTC
* *
1135159 TT-AAAGTCCACAACTCCGTGGCACC--ATT-
1 TTCAAAGTCCACAACTCTGTGGCACCTTTTTC
* * * *
1135187 TT-GAAGTCCACAACTCTCTGACACCTTTTTT
1 TTCAAAGTCCACAACTCTGTGGCACCTTTTTC
* *
1135218 TTCAAAGTCCGCAACTCCGTGGCATCC--TTT-
1 TTCAAAGTCCACAACTCTGTGGCA-CCTTTTTC
1135248 TTCAAAGTCCACAACT-TCGTGGCACCTTTTTC
1 TTCAAAGTCCACAACTCT-GTGGCACCTTTTTC
* * * **
1135280 TAT-AAAATCCATAACTTTGTGGCATATTTTTC
1 T-TCAAAGTCCACAACTCTGTGGCACCTTTTTC
*
1135312 TTCAAAGTCCACAACT-TCGTGGCACC-CTTT-
1 TTCAAAGTCCACAACTCT-GTGGCACCTTTTTC
** * *
1135342 TTCAAAGTTGACAACTCCGT-G-ACATTTTT-
1 TTCAAAGTCCACAACTCTGTGGCACCTTTTTC
* * *
1135371 TTTAAACTCCAAAACTCTGTGGCACCTTTTTC
1 TTCAAAGTCCACAACTCTGTGGCACCTTTTTC
* * * **
1135403 TTTAAAGTCCATAACT-TCCTGGCACCCCTTT-
1 TTCAAAGTCCACAACTCT-GTGGCACCTTTTTC
* * *
1135434 TT-AAAGTCTACAACTCTGTGGTA--TCTTT-
1 TTCAAAGTCCACAACTCTGTGGCACCTTTTTC
* **
1135462 TT-ATAGTCCACAACTCAATGGCACCTTTTTC
1 TTCAAAGTCCACAACTCTGTGGCACCTTTTTC
* * * *
1135493 TTCAAAGTTCATAA-TTTCGTGGCACATTTTTC
1 TTCAAAGTCCACAACTCT-GTGGCACCTTTTTC
* * **
1135525 TTTAAAGTCCACAATTCCATGGCACCTT
1 TTCAAAGTCCACAACTCTGTGGCACCTT
1135553 GTAGACACCT
Statistics
Matches: 474, Mismatches: 100, Indels: 79
0.73 0.15 0.12
Matches are distributed among these distances:
28 45 0.09
29 44 0.09
30 98 0.21
31 55 0.12
32 191 0.40
33 40 0.08
34 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.35
Consensus pattern (32 bp):
TTCAAAGTCCACAACTCTGTGGCACCTTTTTC
Found at i:1135055 original size:124 final size:123
Alignment explanation
Indices: 1134881--1135271 Score: 393
Period size: 124 Copynumber: 3.2 Consensus size: 123
1134871 TCTCTTTTCG
* * * *
1134881 AAGTCCACGACTCAGTGGCATCCCTTATTCAAAGTCCACGACTCAGTGGCACACCTTCTTAAAGT
1 AAGTCCACAACTCCGTGGCATCTCTTATT-AAAGTCCACAACTCAGTGGCAC-CCTT-TTAAAGT
1134946 CCACGACTTAGTGGCATCCTTTTTTTTCAAAGTCCACAACTCTATGGCACCTTTTTCTTCA
63 CCACGACTTAGTGGCATCCTTTTTTTTCAAAGTCCACAACTCTATGGCACCTTTTTCTTCA
* * * *
1135007 AAGTCCATAACTCCGTGGCATCTCTT-TTAAGGTCCACAACTTAGTGGCACCCCTTATCAAAGTC
1 AAGTCCACAACTCCGTGGCATCTCTTATTAAAGTCCACAACTCAGTGGCA-CCCTT-TTAAAGTC
* ** * *
1135071 CACGACTCAGTGGCATCCTTTTTCCTCAAACTCCACAACTTTGA-GGCACCTTTTTCTTCA
64 CACGACTTAGTGGCATCCTTTTTTTTCAAAGTCCACAACTCT-ATGGCACCTTTTTCTTCA
* * * * * * *
1135131 AAGTCCATAACTTCGTGGCA-CATTTTTCTTAAAGTCCACAACTCCGTGGCACCATTTTGAAGTC
1 AAGTCCACAACTCCGTGGCATC--TCTTATTAAAGTCCACAACTCAGTGGCACCCTTTTAAAGTC
* * * * **
1135195 CACAACTCT-CTGACA-CCTTTTTTTTCAAAGTCCGCAACTCCGTGGCATCC--TTT-TTCA
64 CACGACT-TAGTGGCATCCTTTTTTTTCAAAGTCCACAACTCTATGGCA-CCTTTTTCTTCA
*
1135252 AAGTCCACAACTTCGTGGCA
1 AAGTCCACAACTCCGTGGCA
1135272 CCTTTTTCTA
Statistics
Matches: 223, Mismatches: 34, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
121 23 0.10
122 3 0.01
123 25 0.11
124 119 0.53
125 11 0.05
126 42 0.19
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.31
Consensus pattern (123 bp):
AAGTCCACAACTCCGTGGCATCTCTTATTAAAGTCCACAACTCAGTGGCACCCTTTTAAAGTCCA
CGACTTAGTGGCATCCTTTTTTTTCAAAGTCCACAACTCTATGGCACCTTTTTCTTCA
Found at i:1135215 original size:91 final size:91
Alignment explanation
Indices: 1134881--1135552 Score: 452
Period size: 91 Copynumber: 7.3 Consensus size: 91
1134871 TCTCTTTTCG
* * * * * *
1134881 AAGTCCACGACTCAGTGGCATCCCTTATTCAAAGTCCACGACTCAGTGGCACAC--CTTCTT-AA
1 AAGTCCACAACTCCGTGGCA--CCTT-TTTAAAGTCCACAACTCTGTGGCAC-CTTTTTCTTCAA
** * *
1134943 AGTCCACGACTTAGTGGCATCCTTTTTTTTCA
62 AGTCCATAACTTCGTGGCA-CCTTTTTCTT-A
** * * * *
1134975 AAGTCCACAACTCTATGGCACCTTTTTCTTCAAAGTCCATAACTCCGTGGCATC-TCTT-TT-AA
1 AAGTCCACAACTCCGTGGCACC--TTT-TT-AAAGTCCACAACTCTGTGGCACCTTTTTCTTCAA
* * * * *
1135037 GGTCCACAACTTAGTGGCACCCCTTATC--A
62 AGTCCATAACTTCGTGGCA-CCTTTTTCTTA
* * * * *
1135066 AAGTCCACGACTCAGTGGCATCCTTTTTCCTCAAACTCCACAACTTTGAGGCACCTTTTTCTTCA
1 AAGTCCACAACTCCGTGGCA-CC-TTTT--T-AAAGTCCACAACTCTGTGGCACCTTTTTCTTCA
*
1135131 AAGTCCATAACTTCGTGGCACATTTTTCTTA
61 AAGTCCATAACTTCGTGGCACCTTTTTCTTA
* * * * *
1135162 AAGTCCACAACTCCGTGGCACCATTTTGAAGTCCACAACTCTCTGACACCTTTTTTTTCAAAGTC
1 AAGTCCACAACTCCGTGGCACCTTTTTAAAGTCCACAACTCTGTGGCACCTTTTTCTTCAAAGTC
** *
1135227 CGCAACTCCGTGGCATCCTTTTTC--A
66 CATAACTTCGTGGCA-CCTTTTTCTTA
* * * * **
1135252 AAGTCCACAACTTCGTGGCACCTTTTTCTATAAAATCCATAACTTTGTGGCATATTTTTCTTCAA
1 AAGTCCACAACTCCGTGGCACC--TTT-T-TAAAGTCCACAACTCTGTGGCACCTTTTTCTTCAA
*
1135317 AGTCCACAACTTCGTGGCACCCTTTTTC--A
62 AGTCCATAACTTCGTGGCA-CCTTTTTCTTA
** * ** * * *
1135346 AAGTTGACAACTCCGTGACATTTTTTTTAAACTCCAAAACTCTGTGGCACCTTTTTCTTTAAAGT
1 AAGTCCACAACTCCGTGGCA-CCTTTTTAAAGTCCACAACTCTGTGGCACCTTTTTCTTCAAAGT
* **
1135411 CCATAACTTCCTGGCACCCCTTT-TTA
65 CCATAACTTCGTGGCACCTTTTTCTTA
* * * * * ** *
1135437 AAGTCTACAACTCTGTGGTATCTTTTTATAGTCCACAACTCAATGGCACCTTTTTCTTCAAAGTT
1 AAGTCCACAACTCCGTGGCACCTTTTTAAAGTCCACAACTCTGTGGCACCTTTTTCTTCAAAGTC
* *
1135502 CATAATTTCGTGGCACATTTTTCTTTA
66 CATAACTTCGTGGCACCTTTTTC-TTA
* *
1135529 AAGTCCACAATTCCATGGCACCTT
1 AAGTCCACAACTCCGTGGCACCTT
1135553 GTAGACACCT
Statistics
Matches: 457, Mismatches: 98, Indels: 48
0.76 0.16 0.08
Matches are distributed among these distances:
90 82 0.18
91 127 0.28
92 55 0.12
93 8 0.02
94 125 0.27
95 41 0.09
96 19 0.04
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (91 bp):
AAGTCCACAACTCCGTGGCACCTTTTTAAAGTCCACAACTCTGTGGCACCTTTTTCTTCAAAGTC
CATAACTTCGTGGCACCTTTTTCTTA
Found at i:1135233 original size:60 final size:61
Alignment explanation
Indices: 1134911--1135548 Score: 308
Period size: 62 Copynumber: 10.3 Consensus size: 61
1134901 TCCCTTATTC
* * * * * *
1134911 AAAGTCCACGACTCAGTGGCA-CACCTTCTT-AAAGTCCACGACTTAGTGGCATCCTTTTTTTT
1 AAAGTCCACAACTCCGTGGCATC-CATT-TTCAAAGTCCACAACTTCGTGGCA-CCTTTTTCTT
** * * * * *
1134973 CAAAGTCCACAACTCTATGGCA-CCTTTTTCTTCAAAGTCCATAACTCCGTGGCATC-TCTT-TT
1 -AAAGTCCACAACTCCGTGGCATCC--ATT-TTCAAAGTCCACAACTTCGTGGCACCTTTTTCTT
* ** * * * * *
1135035 AAGGTCCACAACTTAGTGGCACCCCTTATCAAAGTCCACGAC-TCAGTGGCATCCTTTTTCCTC
1 AAAGTCCACAACTCCGTGGCATCCATTTTCAAAGTCCACAACTTC-GTGGCA-CCTTTTT-CTT
* ** * * * *
1135098 AAACTCCACAACTTTGAGGCA-CCTTTTTCTTCAAAGTCCATAACTTCGTGGCACATTTTTCTT
1 AAAGTCCACAACTCCGTGGCATCC--ATT-TTCAAAGTCCACAACTTCGTGGCACCTTTTTCTT
* * *
1135161 AAAGTCCACAACTCCGTGGCA-CCATTTT-GAAGTCCACAACTCTC-TGACACCTTTTTTTT
1 AAAGTCCACAACTCCGTGGCATCCATTTTCAAAGTCCACAACT-TCGTGGCACCTTTTTCTT
* *
1135220 CAAAGTCCGCAACTCCGTGGCATCCTTTTTCAAAGTCCACAACTTCGTGGCACCTTTTTCTAT
1 -AAAGTCCACAACTCCGTGGCATCCATTTTCAAAGTCCACAACTTCGTGGCACCTTTTTCT-T
* * ** ***
1135283 AAAATCCATAACTTTGTGGCATATTTTTCTTCAAAGTCCACAACTTCGTGGCACCCTTTTTC--
1 AAAGTCCACAACTCCGTGGCAT-CCATT-TTCAAAGTCCACAACTTCGTGGCA-CCTTTTTCTT
** * ** * * *
1135345 AAAGTTGACAACTCCGTGACAT-TTTTTTTAAACTCCAAAAC-TCTGTGGCACCTTTTTCTTT
1 AAAGTCCACAACTCCGTGGCATCCATTTTCAAAGTCCACAACTTC-GTGGCACCTTTTTC-TT
* * * * * * *
1135406 AAAGTCCATAACTTCC-TGGCACCCCTTTTTAAAGTCTACAAC-TCTGTGGTA--TCTTT-TT
1 AAAGTCCACAAC-TCCGTGGCATCCATTTTCAAAGTCCACAACTTC-GTGGCACCTTTTTCTT
* ** * * * * *
1135464 ATAGTCCACAACTCAATGGCA-CCTTTTTCTTCAAAGTTCATAATTTCGTGGCACATTTTTCTTT
1 AAAGTCCACAACTCCGTGGCATCC--ATT-TTCAAAGTCCACAACTTCGTGGCACCTTTTTC-TT
* *
1135528 AAAGTCCACAATTCCATGGCA
1 AAAGTCCACAACTCCGTGGCA
1135549 CCTTGTAGAC
Statistics
Matches: 448, Mismatches: 90, Indels: 73
0.73 0.15 0.12
Matches are distributed among these distances:
57 4 0.01
58 28 0.06
59 61 0.14
60 50 0.11
61 45 0.10
62 92 0.21
63 65 0.15
64 58 0.13
65 43 0.10
66 2 0.00
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (61 bp):
AAAGTCCACAACTCCGTGGCATCCATTTTCAAAGTCCACAACTTCGTGGCACCTTTTTCTT
Found at i:1135312 original size:185 final size:186
Alignment explanation
Indices: 1135032--1135550 Score: 524
Period size: 185 Copynumber: 2.8 Consensus size: 186
1135022 TGGCATCTCT
* ** * *
1135032 TTTAAGGTCCACAACTTAGTGGCACCCC-TTATCAAAGTCCACGACTCAGTGGCATCCTTTTTCC
1 TTTAAAGTCCACAACTTCCTGGCACCCCTTTTTCAAAGTCCACAACTCAGTGGCA-CCTTTTT-C
* * *
1135096 T-CAAACTCCACAACTTTGAGGCACCTTTTTCTTCAAAGTCCATAACTTCGTGGCACATTTTTCT
64 TATAAAATCCACAACTTTGTGGCACCTTTTTCTTCAAAGTCCATAACTTCGTGGCACATTTTTCT
* * *
1135160 TAAAGTCCACAACTCCGTGGCACCATTTTGAAGTCCACAACTCTCTGACACCTTTTT-
129 TAAAGTCCACAACTCCGTGGCACCATTTTAAACTCCAAAACTCTCTGACACCTTTTTC
* *
1135217 TTTCAAAGTCCGCAAC-TCCGTGGCA-TCCTTTTTCAAAGTCCACAACTTC-GTGGCACCTTTTT
1 TTT-AAAGTCCACAACTTCC-TGGCACCCCTTTTTCAAAGTCCACAAC-TCAGTGGCACCTTTTT
* ** * *
1135279 CTATAAAATCCATAACTTTGTGGCATATTTTTCTTCAAAGTCCACAACTTCGTGGCACCCTTTTT
63 CTATAAAATCCACAACTTTGTGGCACCTTTTTCTTCAAAGTCCATAACTTCGTGGCA-CATTTTT
** * *** * *
1135344 C--AAAGTTGACAACTCCGTGACATTTTTTTTAAACTCCAAAACTCTGTGGCACCTTTTTC
127 CTTAAAGTCCACAACTCCGTGGCA-CCATTTTAAACTCCAAAACTCTCTGACACCTTTTTC
* * * * *
1135403 TTTAAAGTCCATAACTTCCTGGCACCCCTTTTT-AAAGTCTACAACTCTGTGGTATC-TTTT-TA
1 TTTAAAGTCCACAACTTCCTGGCACCCCTTTTTCAAAGTCCACAACTCAGTGGCACCTTTTTCTA
* *** * *
1135465 T--AGTCCACAACTCAATGGCACCTTTTTCTTCAAAGTTCATAATTTCGTGGCACATTTTTCTTT
66 TAAAATCCACAACTTTGTGGCACCTTTTTCTTCAAAGTCCATAACTTCGTGGCACATTTTTC-TT
* *
1135528 AAAGTCCACAATTCCATGGCACC
130 AAAGTCCACAACTCCGTGGCACC
1135551 TTGTAGACAC
Statistics
Matches: 270, Mismatches: 50, Indels: 31
0.77 0.14 0.09
Matches are distributed among these distances:
180 7 0.03
181 41 0.15
183 19 0.07
184 26 0.10
185 119 0.44
186 56 0.21
187 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.35
Consensus pattern (186 bp):
TTTAAAGTCCACAACTTCCTGGCACCCCTTTTTCAAAGTCCACAACTCAGTGGCACCTTTTTCTA
TAAAATCCACAACTTTGTGGCACCTTTTTCTTCAAAGTCCATAACTTCGTGGCACATTTTTCTTA
AAGTCCACAACTCCGTGGCACCATTTTAAACTCCAAAACTCTCTGACACCTTTTTC
Found at i:1135812 original size:21 final size:20
Alignment explanation
Indices: 1135768--1135820 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
1135758 TTAAATAATT
* *
1135768 TGTATCGATACATAAGTGAA
1 TGTATCGATACATAACTAAA
*
1135788 TGTATCGATACATACCTAAAA
1 TGTATCGATACATAACT-AAA
*
1135809 TGTATTGATACA
1 TGTATCGATACA
1135821 AGACCATGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (20 bp):
TGTATCGATACATAACTAAA
Found at i:1138308 original size:25 final size:22
Alignment explanation
Indices: 1138255--1138311 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 22
1138245 AAATACCAAA
1138255 ATTTTC-AAGGATACTCCAACC
1 ATTTTCAAAGGATACTCCAACC
1138276 ATTCTTTCAAAGGAATACTCCAACTCC
1 A-T-TTTCAAAGG-ATACTCCAA--CC
1138303 ATTTTCAAA
1 ATTTTCAAA
1138312 CTTGTCAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
21 1 0.03
22 1 0.03
23 4 0.13
24 4 0.13
25 16 0.53
26 1 0.03
27 3 0.10
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.32
Consensus pattern (22 bp):
ATTTTCAAAGGATACTCCAACC
Found at i:1139336 original size:29 final size:28
Alignment explanation
Indices: 1139303--1139422 Score: 95
Period size: 29 Copynumber: 4.2 Consensus size: 28
1139293 GCAACACACC
*
1139303 CCTTTTTAAAGTCCACAATTTC-GTGGCA-
1 CCTTTTT-AAGTCCACAA-CTCGGTGGCAG
1139331 -CTCTTTTAAGTCCACAACTCGGTGGCAG
1 CCT-TTTTAAGTCCACAACTCGGTGGCAG
** *
1139359 CCTTTTTTAAGTCCACAACTCCATGGCAT
1 CC-TTTTTAAGTCCACAACTCGGTGGCAG
* * *
1139388 CCATTTTCAAGGTCCATAACTCAGTGGCA-
1 CC-TTTTTAA-GTCCACAACTCGGTGGCAG
1139417 CCTTTT
1 CCTTTT
1139423 CACAAGGTCC
Statistics
Matches: 77, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
26 2 0.03
27 18 0.23
28 8 0.10
29 33 0.43
30 16 0.21
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.33
Consensus pattern (28 bp):
CCTTTTTAAGTCCACAACTCGGTGGCAG
Found at i:1139386 original size:56 final size:58
Alignment explanation
Indices: 1139303--1139422 Score: 140
Period size: 56 Copynumber: 2.1 Consensus size: 58
1139293 GCAACACACC
* * * *
1139303 CCTTTTTAAAGTCCACAATTTCGTGGCA-CTC-TTTT-AA-GTCCACAACTCGGTGGCA
1 CCTTTTTAAAGTCCACAACTCCATGGCATC-CATTTTCAAGGTCCACAACTCAGTGGCA
* *
1139358 GCCTTTTTTAAGTCCACAACTCCATGGCATCCATTTTCAAGGTCCATAACTCAGTGGCA
1 -CCTTTTTAAAGTCCACAACTCCATGGCATCCATTTTCAAGGTCCACAACTCAGTGGCA
1139417 CCTTTT
1 CCTTTT
1139423 CACAAGGTCC
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
56 25 0.46
57 5 0.09
58 8 0.15
59 16 0.30
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.33
Consensus pattern (58 bp):
CCTTTTTAAAGTCCACAACTCCATGGCATCCATTTTCAAGGTCCACAACTCAGTGGCA
Found at i:1139409 original size:30 final size:29
Alignment explanation
Indices: 1139325--1139436 Score: 83
Period size: 30 Copynumber: 3.9 Consensus size: 29
1139315 CCACAATTTC
* *
1139325 GTGGCACTCTTTT--AA-GTCCACAACTCG
1 GTGGCAC-CTTTTACAAGGTCCATAACTCA
** *
1139352 GTGGCAGCCTTTTTTAA-GTCCACAACTCCA
1 GTGGCA-CCTTTTACAAGGTCCATAACT-CA
1139382 -TGGCATCCATTTT-CAAGGTCCATAACTCA
1 GTGGCA-CC-TTTTACAAGGTCCATAACTCA
1139411 GTGGCACCTTTTCACAAGGTCCATAA
1 GTGGCACCTTTT-ACAAGGTCCATAA
1139437 GTCGGTAATA
Statistics
Matches: 72, Mismatches: 4, Indels: 15
0.79 0.04 0.16
Matches are distributed among these distances:
27 11 0.15
28 5 0.07
29 25 0.35
30 31 0.43
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (29 bp):
GTGGCACCTTTTACAAGGTCCATAACTCA
Found at i:1139555 original size:33 final size:32
Alignment explanation
Indices: 1139462--1139763 Score: 283
Period size: 33 Copynumber: 9.4 Consensus size: 32
1139452 CTCAAAGCTG
* *
1139462 ACACAAGTAGGTGGCAACCCTTTCTAAAGCCC
1 ACACAAGTCGATGGCAACCCTTTCTAAAGCCC
* * *
1139494 ACACAAGT-TAGTGGTAAACCTTTCTAAAGCCC
1 ACACAAGTCGA-TGGCAACCCTTTCTAAAGCCC
* *
1139526 ACATAAGTCGATGGCATCCTCTTTCTAAAGCCC
1 ACACAAGTCGATGGCAACC-CTTTCTAAAGCCC
* * *
1139559 ACACAAGTCGATAGTAACCCTTTTCTAAAGCCT
1 ACACAAGTCGATGGCAACCC-TTTCTAAAGCCC
* * *
1139592 ACACAAGTCGATGGTAGCCC-TTCTAAAGCCG
1 ACACAAGTCGATGGCAACCCTTTCTAAAGCCC
* *
1139623 ACACAAGTCGATGACAACACTTT-TAAAGCCC
1 ACACAAGTCGATGGCAACCCTTTCTAAAGCCC
* * *
1139654 ACATAAGTCGATGACAACCCTTCTCTAAAGCCT
1 ACACAAGTCGATGGCAACCCTT-TCTAAAGCCC
**
1139687 ACACAAGTC-AGTGGCAACCC-TTCTAAAGCTT
1 ACACAAGTCGA-TGGCAACCCTTTCTAAAGCCC
** *
1139718 GTACAAGTCGGTGGCAACCCTTT-TCAAAGCCC
1 ACACAAGTCGATGGCAACCCTTTCT-AAAGCCC
* *
1139750 AAACAAGTCAATGG
1 ACACAAGTCGATGG
1139764 TGTCTCTTTT
Statistics
Matches: 222, Mismatches: 37, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
31 79 0.36
32 62 0.28
33 81 0.36
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (32 bp):
ACACAAGTCGATGGCAACCCTTTCTAAAGCCC
Found at i:1139619 original size:31 final size:31
Alignment explanation
Indices: 1139462--1139763 Score: 248
Period size: 31 Copynumber: 9.5 Consensus size: 31
1139452 CTCAAAGCTG
* *
1139462 ACACAAGTAGGTGGCAACCCTTTCTAAAGCCC
1 ACACAAGTCGATGGCAACCC-TTCTAAAGCCC
* * *
1139494 ACACAAGT-TAGTGGTAAACCTTTCTAAAGCCC
1 ACACAAGTCGA-TGG-CAACCCTTCTAAAGCCC
* *
1139526 ACATAAGTCGATGGCATCCTCTTTCTAAAGCCC
1 ACACAAGTCGATGGCAACC-C-TTCTAAAGCCC
* * *
1139559 ACACAAGTCGATAGTAACCCTTTTCTAAAGCCT
1 ACACAAGTCGATGGCAACCC--TTCTAAAGCCC
* * *
1139592 ACACAAGTCGATGGTAGCCCTTCTAAAGCCG
1 ACACAAGTCGATGGCAACCCTTCTAAAGCCC
* * *
1139623 ACACAAGTCGATGACAACACTTTTAAAGCCC
1 ACACAAGTCGATGGCAACCCTTCTAAAGCCC
* * *
1139654 ACATAAGTCGATGACAACCCTTCTCTAAAGCCT
1 ACACAAGTCGATGGCAACCC-T-TCTAAAGCCC
**
1139687 ACACAAGTC-AGTGGCAACCCTTCTAAAGCTT
1 ACACAAGTCGA-TGGCAACCCTTCTAAAGCCC
** * *
1139718 GTACAAGTCGGTGGCAACCCTTTTCAAAGCCC
1 ACACAAGTCGATGGCAACCCTTCT-AAAGCCC
* *
1139750 AAACAAGTCAATGG
1 ACACAAGTCGATGG
1139764 TGTCTCTTTT
Statistics
Matches: 219, Mismatches: 40, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
31 84 0.38
32 51 0.23
33 84 0.38
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (31 bp):
ACACAAGTCGATGGCAACCCTTCTAAAGCCC
Found at i:1139633 original size:64 final size:63
Alignment explanation
Indices: 1139473--1139758 Score: 260
Period size: 64 Copynumber: 4.5 Consensus size: 63
1139463 CACAAGTAGG
* *
1139473 TGGCAACCCTTTCTAAAGCCCACACAAGT-TAGTGGTAAACCTTTCTAAAGCCCACATAAGTCGA
1 TGGCAACCCTTTCTAAAGCCCACACAAGTCGA-T-GTAACCCTTTCTAAAGCCCACATAAGTCGA
* * *
1139537 TGGCATCCTCTTTCTAAAGCCCACACAAGTCGATAGTAACCCTTTTCTAAAGCCTACACAAGTCG
1 TGGCAACC-CTTTCTAAAGCCCACACAAGTCGAT-GTAACCC-TTTCTAAAGCCCACATAAGTCG
1139602 A
63 A
* * * * *
1139603 TGGTAGCCC-TTCTAAAGCCGACACAAGTCGATGACAACACTTT-TAAAGCCCACATAAGTCGA
1 TGGCAACCCTTTCTAAAGCCCACACAAGTCGATG-TAACCCTTTCTAAAGCCCACATAAGTCGA
* * * **** *
1139665 TGACAACCCTTCTCTAAAGCCTACACAAGTC-AGTGGCAACCC-TTCTAAAGCTTGTACAAGTCG
1 TGGCAACCCTT-TCTAAAGCCCACACAAGTCGA-T-GTAACCCTTTCTAAAGCCCACATAAGTCG
*
1139728 G
63 A
*
1139729 TGGCAACCCTTT-TCAAAGCCCAAACAAGTC
1 TGGCAACCCTTTCT-AAAGCCCACACAAGTC
1139759 AATGGTGTCT
Statistics
Matches: 185, Mismatches: 27, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
62 24 0.13
63 23 0.12
64 80 0.43
65 30 0.16
66 28 0.15
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (63 bp):
TGGCAACCCTTTCTAAAGCCCACACAAGTCGATGTAACCCTTTCTAAAGCCCACATAAGTCGA
Found at i:1139905 original size:52 final size:52
Alignment explanation
Indices: 1139842--1140107 Score: 218
Period size: 52 Copynumber: 5.1 Consensus size: 52
1139832 CTAAGTCTAG
* ** * *
1139842 TGTCGTTGGCCTTGAAGAAGCACATTGGCATTCTTCTCATCTTGAAGTTCAT
1 TGTCGCTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTTAAGTTCAA
* ** * * *
1139894 TGTCGCTGGCCTCGAATCAGCACATTGGCACCCTTGTCATCTTTAGGATTGATA
1 TGTCGCTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTTAAG-TTCA-A
* * * * * **
1139948 T-T-GCTAGCCTTGAATCAGCATATTAGCA-CCTTTATCAAT-TTTAAGCCCAA
1 TGTCGCTGGCCTTGAATCAGCACATTGGCATTC-TTCTC-ATCTTTAAGTTCAA
* * * * * *
1139998 TGTCACTGGCCTTAAATCAGCATATTAGCATTTTTCTCATTTTTAAG-TCAA
1 TGTCGCTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTTAAGTTCAA
* * *
1140049 TGTCGCTGGCCTTGAATCAGCACATTGGTATTCTTCTCATCTTCAAGTCCAA
1 TGTCGCTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTTAAGTTCAA
1140101 TGTCGCT
1 TGTCGCT
1140108 AGCTGTGAAT
Statistics
Matches: 169, Mismatches: 36, Indels: 18
0.76 0.16 0.08
Matches are distributed among these distances:
50 2 0.01
51 48 0.28
52 112 0.66
53 6 0.04
54 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (52 bp):
TGTCGCTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTTAAGTTCAA
Found at i:1140877 original size:51 final size:52
Alignment explanation
Indices: 1140822--1140938 Score: 173
Period size: 52 Copynumber: 2.3 Consensus size: 52
1140812 TTTTTTATTC
*
1140822 TATCGATACATTCTAGG-TTTTGACCTAATTTTATCAATACATTATTCAATG
1 TATCGATACATTCTAGGTTTTTGACCTAAATTTATCAATACATTATTCAATG
* * * *
1140873 TATCGATACATTCTGGGTTTTTGACCTAAATTTATCGATACATTCTTGAATG
1 TATCGATACATTCTAGGTTTTTGACCTAAATTTATCAATACATTATTCAATG
*
1140925 TATCGATGCATTCT
1 TATCGATACATTCT
1140939 TGAATGTATC
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
51 16 0.27
52 43 0.73
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (52 bp):
TATCGATACATTCTAGGTTTTTGACCTAAATTTATCAATACATTATTCAATG
Found at i:1140930 original size:20 final size:20
Alignment explanation
Indices: 1140905--1140975 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
1140895 GACCTAAATT
1140905 TATCGATACATTCTTGAATG
1 TATCGATACATTCTTGAATG
*
1140925 TATCGATGCATTCTTGAATG
1 TATCGATACATTCTTGAATG
* *
1140945 TATCGATACATTCTTCAAAG
1 TATCGATACATTCTTGAATG
1140965 TATCGATACAT
1 TATCGATACAT
1140976 CGAGTTAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (20 bp):
TATCGATACATTCTTGAATG
Found at i:1141404 original size:13 final size:13
Alignment explanation
Indices: 1141386--1141412 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1141376 AGACTTTTGC
1141386 TTTCAGCCACATT
1 TTTCAGCCACATT
1141399 TTTCAGCCACATT
1 TTTCAGCCACATT
1141412 T
1 T
1141413 CTATCCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.30, G:0.07, T:0.41
Consensus pattern (13 bp):
TTTCAGCCACATT
Found at i:1143408 original size:27 final size:27
Alignment explanation
Indices: 1143378--1143440 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
1143368 TTCATCGTTG
*
1143378 GGGATATTCCAACCCCATTCCTCTAAA
1 GGGATACTCCAACCCCATTCCTCTAAA
*
1143405 GGGATACTCCAACCCCATTCCTCTGAA
1 GGGATACTCCAACCCCATTCCTCTAAA
1143432 GGGATACTC
1 GGGATACTC
1143441 TAGCCCTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.24
Consensus pattern (27 bp):
GGGATACTCCAACCCCATTCCTCTAAA
Found at i:1147369 original size:52 final size:52
Alignment explanation
Indices: 1147187--1147370 Score: 224
Period size: 52 Copynumber: 3.5 Consensus size: 52
1147177 CCCAATGTAG
* * * * * * *
1147187 CTAGTTCTGTCTAGTGAAATTGGCTAATATTAAAAGTTAAAACCCAACGTAA
1 CTAGTTTTGCCTAGTGAAATTGGCTAGTATTAAAAGTCAAAGCCTAACATAA
* * * *
1147239 CTAGTTTTACCTAGTGAAATTGGCCATTATTAAGAGTCAAAGCCTAACATAA
1 CTAGTTTTGCCTAGTGAAATTGGCTAGTATTAAAAGTCAAAGCCTAACATAA
* * * *
1147291 CTAATTTTGCCTAGTGAAATTGGCTAGTATCAAAAGTCAAAGCCTTACACAA
1 CTAGTTTTGCCTAGTGAAATTGGCTAGTATTAAAAGTCAAAGCCTAACATAA
*
1147343 CTAGTTTTGCCTAATGAAATTGGCTAGT
1 CTAGTTTTGCCTAGTGAAATTGGCTAGT
1147371 GCAAGGTCCA
Statistics
Matches: 112, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 112 1.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (52 bp):
CTAGTTTTGCCTAGTGAAATTGGCTAGTATTAAAAGTCAAAGCCTAACATAA
Found at i:1147549 original size:50 final size:49
Alignment explanation
Indices: 1147495--1147856 Score: 174
Period size: 50 Copynumber: 7.2 Consensus size: 49
1147485 CCGTAAGAGA
* * * *
1147495 TGGCACTTGATAGTAAGGTCAAATCCTATAGAGTTAAGGT-TAACATGAGC
1 TGGCACTTGATAG-AAGGTTAAATCCTATAAAGTCAAAGTCT-ACATGAGC
* * *
1147545 TGGCACTTAATAGGAAAGTTAAATCCTATAAAGTCAAAGTCTACATTAGC
1 TGGCACTTGATA-GAAGGTTAAATCCTATAAAGTCAAAGTCTACATGAGC
* * * ** * *
1147595 TAGCACTTGATTAGAAGGTTAAGTCCTACATAA-TCAAAAACCATATGAGC
1 TGGCACTTGA-TAGAAGGTTAAATCCTATA-AAGTCAAAGTCTACATGAGC
* * * * * * * * * * * *
1147645 TAGTA-TTAGATAAAAAGGTCAAGTCTTGTAAAATCAAATTTTGCATGAGG
1 TGGCACTT-GAT-AGAAGGTTAAATCCTATAAAGTCAAAGTCTACATGAGC
* * * * * * * *
1147695 TAGCACCTGATAAGAAAGTCAAATCCTATAGAGTTATAGTCTACATGAGT
1 TGGCACTTGAT-AGAAGGTTAAATCCTATAAAGTCAAAGTCTACATGAGC
* * * * ** * *
1147745 TGGCACTTAATAAAAAGGTCAAATGCTATAGGGTCAAAGTCCACATTAGC
1 TGGCACTTGAT-AGAAGGTTAAATCCTATAAAGTCAAAGTCTACATGAGC
* * * *
1147795 TGGCTCTTGATTGAATGGTCAAATCCTATAAAGTCAAAG-CTCATATGAGC
1 TGGCACTTGATAGAA-GGTTAAATCCTATAAAGTCAAAGTCT-ACATGAGC
*
1147845 TTGCACTTGATA
1 TGGCACTTGATA
1147857 AAGAGGTCAA
Statistics
Matches: 232, Mismatches: 70, Indels: 20
0.72 0.22 0.06
Matches are distributed among these distances:
49 8 0.03
50 217 0.94
51 7 0.03
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.28
Consensus pattern (49 bp):
TGGCACTTGATAGAAGGTTAAATCCTATAAAGTCAAAGTCTACATGAGC
Found at i:1147866 original size:200 final size:200
Alignment explanation
Indices: 1147512--1147882 Score: 468
Period size: 200 Copynumber: 1.9 Consensus size: 200
1147502 TGATAGTAAG
* *
1147512 GTCAAATCCTATAGAGTTAAGGTTAACATGAGCTGGCACTTAATAGGAAAGTTAAATCCTATAAA
1 GTCAAATCCTATAGAGTTAAGGTTAACATGAGCTGGCACTTAATAGAAAAGTCAAATCCTATAAA
* * *
1147577 GTCAAAGTCTACATTAGCTAGCACTTGATTAGAAGGTTAAGTCCTACATAATCAAAAACCATATG
66 GTCAAAGTCCACATTAGCTAGCACTTGATTAGAAGGTCAAATCCTACATAATCAAAAACCATATG
* *
1147642 AGCTAGTATTAGATAAAAAGGTCAAGTCTTGTAAAATCAAATTTTGCATGAGGTAGCACCTGATA
131 AGCTAGCATTAGATAAAAAGGTCAAGTATTGTAAAATCAAATTTTGCATGAGGTAGCACCTGATA
1147707 AGAAA
196 AGAAA
* *
1147712 GTCAAATCCTATAGAGTTATA-GTCT-ACATGAGTTGGCACTTAATA-AAAAGGTCAAATGCTAT
1 GTCAAATCCTATAGAGTTA-AGGT-TAACATGAGCTGGCACTTAATAGAAAA-GTCAAATCCTAT
** * * * *
1147774 AGGGTCAAAGTCCACATTAGCTGGCTCTTGATT-GAATGGTCAAATCCTATA-AAGTC-AAAGCT
63 AAAGTCAAAGTCCACATTAGCTAGCACTTGATTAGAA-GGTCAAATCCTACATAA-TCAAAAAC-
* * *
1147836 CATATGAGCTTGCACTT-GATAAAGAGGTCAAGTATTGTAAAGTCAAA
125 CATATGAGCTAGCA-TTAGATAAAAAGGTCAAGTATTGTAAAATCAAA
1147883 ATCCAAATTA
Statistics
Matches: 146, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
199 12 0.08
200 130 0.89
201 4 0.03
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (200 bp):
GTCAAATCCTATAGAGTTAAGGTTAACATGAGCTGGCACTTAATAGAAAAGTCAAATCCTATAAA
GTCAAAGTCCACATTAGCTAGCACTTGATTAGAAGGTCAAATCCTACATAATCAAAAACCATATG
AGCTAGCATTAGATAAAAAGGTCAAGTATTGTAAAATCAAATTTTGCATGAGGTAGCACCTGATA
AGAAA
Found at i:1147901 original size:200 final size:200
Alignment explanation
Indices: 1147512--1147984 Score: 451
Period size: 200 Copynumber: 2.4 Consensus size: 200
1147502 TGATAGTAAG
* *
1147512 GTCAAATCCTATAGAGTTAAGGTTAACATGAGCTGGCACTTAATAGGAAAGTTAAATCCTATAAA
1 GTCAAATCCTATAGAGTTAAGGTTAACATGAGCTGGCACTTAATAGAAAAGTCAAATCCTATAAA
* * *
1147577 GTCAAAGTCTACATTAGCTAGCACTTGATTAGAAGGTTAAGTCCTACATAATCAAAAACCATATG
66 GTCAAAGTCCACATTAGCTAGCACTTGATTAGAAGGTCAAATCCTACATAATCAAAAACCATATG
* * * **** *
1147642 AGCTAGTATTAGATAAAAAGGTCAAGTCTTGTAAAATCAAATTTTGCATGAGGTAGCACCTGATA
131 AGCTAGCATTAGATAAAAAGGTCAAGTATTGTAAAATCAAAATCCAAATGAGCTAGCACCTGATA
1147707 AGAAA
196 AGAAA
* *
1147712 GTCAAATCCTATAGAGTTATA-GTCT-ACATGAGTTGGCACTTAATA-AAAAGGTCAAATGCTAT
1 GTCAAATCCTATAGAGTTA-AGGT-TAACATGAGCTGGCACTTAATAGAAAA-GTCAAATCCTAT
** * * * *
1147774 AGGGTCAAAGTCCACATTAGCTGGCTCTTGATT-GAATGGTCAAATCCTATA-AAGTC-AAAGCT
63 AAAGTCAAAGTCCACATTAGCTAGCACTTGATTAGAA-GGTCAAATCCTACATAA-TCAAAAAC-
* * * *
1147836 CATATGAGCTTGCACTT-GATAAAGAGGTCAAGTATTGTAAAGTCAAAATCCAAATTAGCTAGCA
125 CATATGAGCTAGCA-TTAGATAAAAAGGTCAAGTATTGTAAAATCAAAATCCAAATGAGCTAGCA
*
1147900 CCTGATTA-AAA
189 CCTGATAAGAAA
* * * ** * * * * * * *
1147911 GGCTAAGTCCTATAAAGTTTAA-GTCCATATTAGCTGGGACATAATAGGAAGGTCAAGTCCTATA
1 GTC-AAATCCTATAGAG-TTAAGGTTAACATGAGCTGGCACTTAATAGAAAAGTCAAATCCTATA
*
1147975 GAGTCAAAGT
64 AAGTCAAAGT
1147985 GTACACTAAT
Statistics
Matches: 222, Mismatches: 40, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
199 17 0.08
200 196 0.88
201 9 0.04
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (200 bp):
GTCAAATCCTATAGAGTTAAGGTTAACATGAGCTGGCACTTAATAGAAAAGTCAAATCCTATAAA
GTCAAAGTCCACATTAGCTAGCACTTGATTAGAAGGTCAAATCCTACATAATCAAAAACCATATG
AGCTAGCATTAGATAAAAAGGTCAAGTATTGTAAAATCAAAATCCAAATGAGCTAGCACCTGATA
AGAAA
Found at i:1148991 original size:21 final size:21
Alignment explanation
Indices: 1148965--1149033 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
1148955 AATTTTTATT
1148965 GATACAAATAATGAATGTATC
1 GATACAAATAATGAATGTATC
1148986 GATAC--ATAAGTGAATGTATC
1 GATACAAATAA-TGAATGTATC
* * *
1149006 CATACATATCA-GAAATGTATC
1 GATACAAATAATG-AATGTATC
*
1149027 AATACAA
1 GATACAA
1149034 GACCATGTCG
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 4 0.10
20 15 0.38
21 18 0.45
22 3 0.08
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (21 bp):
GATACAAATAATGAATGTATC
Found at i:1149001 original size:20 final size:19
Alignment explanation
Indices: 1148972--1149013 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
1148962 ATTGATACAA
*
1148972 ATAATGAATGTATCGATAC
1 ATAATGAATGTATCCATAC
1148991 ATAAGTGAATGTATCCATAC
1 ATAA-TGAATGTATCCATAC
1149011 ATA
1 ATA
1149014 TCAGAAATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (19 bp):
ATAATGAATGTATCCATAC
Found at i:1149130 original size:51 final size:52
Alignment explanation
Indices: 1149070--1149208 Score: 174
Period size: 51 Copynumber: 2.7 Consensus size: 52
1149060 TTGGAAAAAA
* *
1149070 AAATGTATCGATACATTTTGCATTATATCGATATATTTTGGG-TTTTAACCC
1 AAATGTATCGATACATTTTGCATTATATCGATACATTCTGGGTTTTTAACCC
* * *
1149121 AAATGTATCGATACATTTTTCATTGTATCGATACATTCTGGGTTTTTAACCT
1 AAATGTATCGATACATTTTGCATTATATCGATACATTCTGGGTTTTTAACCC
* * * *
1149173 AAATGTGTTGATACATTCTT-CAATGTATCGATACAT
1 AAATGTATCGATACATT-TTGCATTATATCGATACAT
1149209 GCAAGCTATT
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
51 38 0.49
52 38 0.49
53 2 0.03
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.42
Consensus pattern (52 bp):
AAATGTATCGATACATTTTGCATTATATCGATACATTCTGGGTTTTTAACCC
Found at i:1149200 original size:52 final size:51
Alignment explanation
Indices: 1149070--1149208 Score: 172
Period size: 52 Copynumber: 2.7 Consensus size: 51
1149060 TTGGAAAAAA
* * * *
1149070 AAATGTATCGATACATT-TTGCATTATATCGATATATTTTGGGTTTTAACCC
1 AAATGTATCGATACATTCTT-CAATGTATCGATACATTCTGGGTTTTAACCC
* * *
1149121 AAATGTATCGATACATTTTTCATTGTATCGATACATTCTGGGTTTTTAACCT
1 AAATGTATCGATACATTCTTCAATGTATCGATACATTCTGGG-TTTTAACCC
* *
1149173 AAATGTGTTGATACATTCTTCAATGTATCGATACAT
1 AAATGTATCGATACATTCTTCAATGTATCGATACAT
1149209 GCAAGCTATT
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
51 36 0.46
52 42 0.54
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.42
Consensus pattern (51 bp):
AAATGTATCGATACATTCTTCAATGTATCGATACATTCTGGGTTTTAACCC
Found at i:1151050 original size:79 final size:78
Alignment explanation
Indices: 1150903--1151162 Score: 279
Period size: 79 Copynumber: 3.3 Consensus size: 78
1150893 CATTAAAAAA
* * * * * *
1150903 GGGATACT-TCAACCCCATCATTTCCTAGGGGATAGTCTAACCTCATTTTTACTTCTAAAATATT
1 GGGATACTCT-AACCCCATCATTT-CTAGGGGATACTCCAACCTTATTTTTATTTCTAAACTATC
*
1150967 GATTTTTCACCATCG
64 GATTTTTCACCATTG
* * * *
1150982 GGGATACTCTAACCCTATCATTTCTGAGGGGATACTCCAACCTTGTTATTATTTTTAAACTATCG
1 GGGATACTCTAACCCCATCATTTCT-AGGGGATACTCCAACCTTATTTTTATTTCTAAACTATCG
*
1151047 ATTTTTCACTATTG
65 ATTTTTCACCATTG
* * * * * * *
1151061 AGGATACTCTAACCCCATCATTTCTAAGCGAATACTCCTACCCTATTTTTATTTCCAAACTATCA
1 GGGATACTCTAACCCCATCATTTCT-AGGGGATACTCCAACCTTATTTTTATTTCTAAACTATCG
*
1151126 ATTTTTTACCATTG
65 ATTTTTCACCATTG
* *
1151140 GGGATATTCCAACCCCATCATTT
1 GGGATACTCTAACCCCATCATTT
1151163 TCGAAAGGAT
Statistics
Matches: 150, Mismatches: 29, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
78 2 0.01
79 147 0.98
80 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (78 bp):
GGGATACTCTAACCCCATCATTTCTAGGGGATACTCCAACCTTATTTTTATTTCTAAACTATCGA
TTTTTCACCATTG
Found at i:1151189 original size:79 final size:79
Alignment explanation
Indices: 1150968--1151198 Score: 229
Period size: 79 Copynumber: 2.9 Consensus size: 79
1150958 TAAAATATTG
* * ** *
1150968 ATTTTTCACCATCGGGGATACTCTAACCCTATCATTTCTGAGGGGATACT-CCA-ACCTTGTTAT
1 ATTTTTCACCATTGGGGATACTCTAACCCCATCATTTC-GAAAGGATACTCCCACACC-TGTTTT
** *
1151031 TATTTTTAAACTATCG
64 TATTTCCAAACTATCA
* * * * *
1151047 ATTTTTCACTATTGAGGATACTCTAACCCCATCATTTC-TAAGCGAATACTCCTAC-CCTATTTT
1 ATTTTTCACCATTGGGGATACTCTAACCCCATCATTTCGAAAG-G-ATACTCCCACACCTGTTTT
1151110 TATTTCCAAACTATCA
64 TATTTCCAAACTATCA
* * *
1151126 ATTTTTTACCATTGGGGATATTCCAACCCCATCATTTTCGAAAGGATACTCCCACACC-GTTTTT
1 ATTTTTCACCATTGGGGATACTCTAACCCCATCA-TTTCGAAAGGATACTCCCACACCTGTTTTT
*
1151190 ACTTCCAAA
65 ATTTCCAAA
1151199 ATATTAAAAT
Statistics
Matches: 123, Mismatches: 22, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
77 1 0.01
78 1 0.01
79 107 0.87
80 11 0.09
81 3 0.02
ACGTcount: A:0.27, C:0.26, G:0.10, T:0.37
Consensus pattern (79 bp):
ATTTTTCACCATTGGGGATACTCTAACCCCATCATTTCGAAAGGATACTCCCACACCTGTTTTTA
TTTCCAAACTATCA
Found at i:1152806 original size:7 final size:7
Alignment explanation
Indices: 1152794--1152819 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
1152784 ACACTATACA
1152794 TTCACTT
1 TTCACTT
1152801 TTCACTT
1 TTCACTT
1152808 TTCACTT
1 TTCACTT
1152815 TTCAC
1 TTCAC
1152820 ATGCTTCTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.31, G:0.00, T:0.54
Consensus pattern (7 bp):
TTCACTT
Found at i:1159977 original size:19 final size:19
Alignment explanation
Indices: 1159932--1159987 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
1159922 CTGCCACTTT
* *
1159932 CATGTGTCGATACAATTGAG
1 CATGTATCGATACAA-TGAA
*
1159952 TATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
1159971 CATGTATCGATACAATG
1 CATGTATCGATACAATG
1159988 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 19 0.59
20 13 0.41
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1159990 original size:13 final size:13
Alignment explanation
Indices: 1159972--1159998 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1159962 TACAATGAAC
1159972 ATGTATCGATACA
1 ATGTATCGATACA
1159985 ATGTATCGATACA
1 ATGTATCGATACA
1159998 A
1 A
1159999 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1162532 original size:13 final size:13
Alignment explanation
Indices: 1162500--1162539 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
1162490 ATAGTAACCC
*
1162500 ATGTATCAATTCA
1 ATGTATCAATACA
* *
1162513 TTATATCAATACA
1 ATGTATCAATACA
1162526 ATGTATCAATACA
1 ATGTATCAATACA
1162539 A
1 A
1162540 AGAACCTTGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (13 bp):
ATGTATCAATACA
Found at i:1169751 original size:62 final size:62
Alignment explanation
Indices: 1169683--1169896 Score: 252
Period size: 62 Copynumber: 3.5 Consensus size: 62
1169673 CTCAGCCATA
* * * * ** *
1169683 GGTGCCACCAACTTATGTGGGCTTTGACTCAAGTGTCGCCAACTCGTACGGGCTTTAACTAG
1 GGTGCCACCAACTTGTGTGGGCTTTGACTCGAGTGTCGCCAGCTTGTGTGGGCTTTGACTAG
* ** *
1169745 GGTGCCACCAACTTGTGTGGGCTTTGACTCGGGTG-CTATCAGCTTGTGTGGGCTTTGACTAT
1 GGTGCCACCAACTTGTGTGGGCTTTGACTCGAGTGTC-GCCAGCTTGTGTGGGCTTTGACTAG
* * * * * *
1169807 GTTTCTACCAACTTGTAT-GGCTTTGACTCGAGTGTCGCCAGCTTGTGTAGACTTTGACTAG
1 GGTGCCACCAACTTGTGTGGGCTTTGACTCGAGTGTCGCCAGCTTGTGTGGGCTTTGACTAG
1169868 GGTGCCACCAACTTGTGTGGGCTTTGACT
1 GGTGCCACCAACTTGTGTGGGCTTTGACT
1169897 TAGGTTCAGG
Statistics
Matches: 124, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
61 50 0.40
62 74 0.60
ACGTcount: A:0.17, C:0.23, G:0.28, T:0.32
Consensus pattern (62 bp):
GGTGCCACCAACTTGTGTGGGCTTTGACTCGAGTGTCGCCAGCTTGTGTGGGCTTTGACTAG
Found at i:1169791 original size:31 final size:31
Alignment explanation
Indices: 1169683--1169896 Score: 166
Period size: 31 Copynumber: 6.9 Consensus size: 31
1169673 CTCAGCCATA
* *
1169683 GGTGCCACCAACTTATGTGGGCTTTGACTCA-
1 GGTGCTACCAACTTGTGTGGGCTTTGACT-AG
* * * ** *
1169714 AGTG-TCGCCAACTCGTACGGGCTTTAACTAG
1 GGTGCT-ACCAACTTGTGTGGGCTTTGACTAG
* *
1169745 GGTGCCACCAACTTGTGTGGGCTTTGACTCG
1 GGTGCTACCAACTTGTGTGGGCTTTGACTAG
* * *
1169776 GGTGCTATCAGCTTGTGTGGGCTTTGACTAT
1 GGTGCTACCAACTTGTGTGGGCTTTGACTAG
* * * *
1169807 GTTTCTACCAACTTGTAT-GGCTTTGACTCG
1 GGTGCTACCAACTTGTGTGGGCTTTGACTAG
* * * * *
1169837 AGTG-TCGCCAGCTTGTGTAGACTTTGACTAG
1 GGTGCT-ACCAACTTGTGTGGGCTTTGACTAG
*
1169868 GGTGCCACCAACTTGTGTGGGCTTTGACT
1 GGTGCTACCAACTTGTGTGGGCTTTGACT
1169897 TAGGTTCAGG
Statistics
Matches: 135, Mismatches: 42, Indels: 12
0.71 0.22 0.06
Matches are distributed among these distances:
29 1 0.01
30 21 0.16
31 113 0.84
ACGTcount: A:0.17, C:0.23, G:0.28, T:0.32
Consensus pattern (31 bp):
GGTGCTACCAACTTGTGTGGGCTTTGACTAG
Found at i:1170219 original size:41 final size:41
Alignment explanation
Indices: 1170162--1170304 Score: 135
Period size: 41 Copynumber: 3.4 Consensus size: 41
1170152 GTCTTGCTCT
*
1170162 TTGAGGATAAAGGAAAAGGAGAATGAAATAGGTCCTGTTCC
1 TTGAGGACAAAGGAAAAGGAGAATGAAATAGGTCCTGTTCC
** * *
1170203 TTGAGGACAAAGGAAAAAAGGAGAAAAAGAAT-GCATCCTGTTTC
1 TTGAGGACAAAGG--AAAAGGAGAATGA-AATAG-GTCCTGTTCC
* * * * *
1170247 TTAAGGACAATGGAAAAGGAGAATGAAATAGGTCTTGCTCT
1 TTGAGGACAAAGGAAAAGGAGAATGAAATAGGTCCTGTTCC
* *
1170288 TTGAAGACAAATGAAAA
1 TTGAGGACAAAGGAAAA
1170305 AAAGATGAAG
Statistics
Matches: 79, Mismatches: 18, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
41 33 0.42
42 12 0.15
43 12 0.15
44 22 0.28
ACGTcount: A:0.43, C:0.10, G:0.26, T:0.21
Consensus pattern (41 bp):
TTGAGGACAAAGGAAAAGGAGAATGAAATAGGTCCTGTTCC
Found at i:1177128 original size:36 final size:36
Alignment explanation
Indices: 1177081--1177152 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
1177071 TCTCGAACAA
1177081 CCTTTTTGAAAGCTCAAGAAATAATGAACCAAGATG
1 CCTTTTTGAAAGCTCAAGAAATAATGAACCAAGATG
1177117 CCTTTTTGAAAGCTCAAGAAATAATGAACCAAGATG
1 CCTTTTTGAAAGCTCAAGAAATAATGAACCAAGATG
1177153 GGGCTGAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.25
Consensus pattern (36 bp):
CCTTTTTGAAAGCTCAAGAAATAATGAACCAAGATG
Found at i:1180348 original size:13 final size:13
Alignment explanation
Indices: 1180330--1180389 Score: 60
Period size: 13 Copynumber: 5.1 Consensus size: 13
1180320 ATAGTAACCC
1180330 ATGTATCGATACA
1 ATGTATCGATACA
1180343 ATGTATCGATACA
1 ATGTATCGATACA
* *
1180356 AGGAAT-G-T---
1 ATGTATCGATACA
1180364 -TGTATCGATACA
1 ATGTATCGATACA
1180376 ATGTATCGATACA
1 ATGTATCGATACA
1180389 A
1 A
1180390 GCAATGTTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
7 3 0.08
8 1 0.03
9 1 0.03
11 1 0.03
12 1 0.03
13 30 0.81
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1180369 original size:20 final size:19
Alignment explanation
Indices: 1180344--1180408 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
1180334 ATCGATACAA
1180344 TGTATCGATACAAGGAATGT
1 TGTATCGATACAA-GAATGT
1180364 TGTATCGATAC---AA---
1 TGTATCGATACAAGAATGT
1180377 TGTATCGATACAAGCAATGT
1 TGTATCGATACAAG-AATGT
1180397 TGTATCGATACA
1 TGTATCGATACA
1180409 TCTGGGTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
16 2 0.05
17 2 0.05
20 23 0.61
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (19 bp):
TGTATCGATACAAGAATGT
Found at i:1180373 original size:33 final size:33
Alignment explanation
Indices: 1180331--1180408 Score: 147
Period size: 33 Copynumber: 2.4 Consensus size: 33
1180321 TAGTAACCCA
*
1180331 TGTATCGATACAATGTATCGATACAAGGAATGT
1 TGTATCGATACAATGTATCGATACAAGCAATGT
1180364 TGTATCGATACAATGTATCGATACAAGCAATGT
1 TGTATCGATACAATGTATCGATACAAGCAATGT
1180397 TGTATCGATACA
1 TGTATCGATACA
1180409 TCTGGGTTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (33 bp):
TGTATCGATACAATGTATCGATACAAGCAATGT
Found at i:1186604 original size:33 final size:33
Alignment explanation
Indices: 1186562--1186630 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
1186552 CCGTTACAAG
* * *
1186562 CAATGTATCGATACAAT-TCATCATGTATCGATA
1 CAATATATCGATACAATAT-ACCATGTATCAATA
1186595 CAATATATCGATACAATATACCATGTATCAATA
1 CAATATATCGATACAATATACCATGTATCAATA
1186628 CAA
1 CAA
1186631 ACAGTGTTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (33 bp):
CAATATATCGATACAATATACCATGTATCAATA
Found at i:1186605 original size:13 final size:13
Alignment explanation
Indices: 1186587--1186614 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1186577 ATTCATCATG
1186587 TATCGATACAATA
1 TATCGATACAATA
1186600 TATCGATACAATA
1 TATCGATACAATA
1186613 TA
1 TA
1186615 CCATGTATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.14, G:0.07, T:0.32
Consensus pattern (13 bp):
TATCGATACAATA
Found at i:1186615 original size:20 final size:20
Alignment explanation
Indices: 1186592--1186630 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1186582 TCATGTATCG
*
1186592 ATACAATATATCGATACAAT
1 ATACAATATATCAATACAAT
* *
1186612 ATACCATGTATCAATACAA
1 ATACAATATATCAATACAA
1186631 ACAGTGTTAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.18, G:0.05, T:0.28
Consensus pattern (20 bp):
ATACAATATATCAATACAAT
Found at i:1186703 original size:19 final size:19
Alignment explanation
Indices: 1186658--1186710 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 19
1186648 ACTACCAGTT
1186658 TCATGTATCGATACAATTG
1 TCATGTATCGATACAATTG
1186677 TGCATGTATCGATACAA-TG
1 T-CATGTATCGATACAATTG
1186696 ATCATGTATCGATAC
1 -TCATGTATCGATAC
1186711 CTTGTATCGA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (19 bp):
TCATGTATCGATACAATTG
Done.