Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold16
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: 5287347
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 8769 characters in sequence are not A, C, G, or T
File 9 of 35
Found at i:1230129 original size:45 final size:44
Alignment explanation
Indices: 1229840--1230196 Score: 285
Period size: 45 Copynumber: 8.0 Consensus size: 44
1229830 TGATTTGATG
* * **
1229840 CCTAGTCAAACTTTTCTCATTTCAAG-TCAACGTATGGTTACCAC
1 CCTAGTC-AACTCTTCTCATTTCAGGTTTGACGTATGGTTACCAC
*
1229884 CTTAGTCCAACTCTTCTCATTTCAGGTTTGACGTATGGTTACCAC
1 CCTAGT-CAACTCTTCTCATTTCAGGTTTGACGTATGGTTACCAC
* * * *
1229929 ACTAGTCTAACTCCTCTCATTTCAAGTTTGACATATGGTTACCAC
1 CCTAGTC-AACTCTTCTCATTTCAGGTTTGACGTATGGTTACCAC
* *
1229974 CCTAGTCCAACTCTTCTCATTTCAGGTTTGATGTATAGTTACCAC
1 CCTAGT-CAACTCTTCTCATTTCAGGTTTGACGTATGGTTACCAC
* * ** *
1230019 CCTAGTCAGATTCTT-TCCATTT-TGAATTGACATATGGTTACCAC
1 CCTAGTCA-ACTCTTCT-CATTTCAGGTTTGACGTATGGTTACCAC
* * * **
1230063 CTTGGTCAAACTCTTCTCATTTCAGGTCTGACGTATGGTTGTCAC
1 CCTAGTC-AACTCTTCTCATTTCAGGTTTGACGTATGGTTACCAC
* * * * *
1230108 CCTAGTCAGATTCTT-TCCATTT-TGATTTGACATATGGTTACTAC
1 CCTAGTCA-ACTCTTCT-CATTTCAGGTTTGACGTATGGTTACCAC
* * * * * * *
1230152 CCTGGTTAGATTCTTTTCA-TTCTGATTTAACGTATGGTTACCAC
1 CCTAGTCA-ACTCTTCTCATTTCAGGTTTGACGTATGGTTACCAC
1230196 C
1 C
1230197 TTGGTCAAAT
Statistics
Matches: 252, Mismatches: 48, Indels: 26
0.77 0.15 0.08
Matches are distributed among these distances:
43 2 0.01
44 108 0.43
45 141 0.56
46 1 0.00
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (44 bp):
CCTAGTCAACTCTTCTCATTTCAGGTTTGACGTATGGTTACCAC
Found at i:1230154 original size:44 final size:44
Alignment explanation
Indices: 1229955--1230196 Score: 202
Period size: 44 Copynumber: 5.5 Consensus size: 44
1229945 TCATTTCAAG
* * *
1229955 TTTGACATATGGTTACCACCCTAGTCCA-ACTC-TTCTCATTTCAGG
1 TTTGACATATGGTTACCACCCTAGT-CAGATTCTTTC-CATTT-TGA
** *
1230000 TTTGATGTATAGTTACCACCCTAGTCAGATTCTTTCCATTTTGA
1 TTTGACATATGGTTACCACCCTAGTCAGATTCTTTCCATTTTGA
* * * * * * *
1230044 ATTGACATATGGTTACCACCTTGGTCAAACTC-TTCTCATTTCAGG
1 TTTGACATATGGTTACCACCCTAGTCAGATTCTTTC-CATTT-TGA
* * **
1230089 TCTGACGTATGGTTGTCACCCTAGTCAGATTCTTTCCATTTTGA
1 TTTGACATATGGTTACCACCCTAGTCAGATTCTTTCCATTTTGA
* * * * *
1230133 TTTGACATATGGTTACTACCCTGGTTAGATTCTTTTCATTCTGA
1 TTTGACATATGGTTACCACCCTAGTCAGATTCTTTCCATTTTGA
* *
1230177 TTTAACGTATGGTTACCACC
1 TTTGACATATGGTTACCACC
1230197 TTGGTCAAAT
Statistics
Matches: 153, Mismatches: 39, Indels: 11
0.75 0.19 0.05
Matches are distributed among these distances:
43 3 0.02
44 85 0.56
45 59 0.39
46 6 0.04
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (44 bp):
TTTGACATATGGTTACCACCCTAGTCAGATTCTTTCCATTTTGA
Found at i:1231670 original size:38 final size:38
Alignment explanation
Indices: 1231625--1231697 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
1231615 CAATTTTGAA
* * *
1231625 AAATTCCTTTTATTTTTTGAATTAT-TGATTTTCTTTTG
1 AAATTCCTTTT-GTTTTTAAATTATGGGATTTTCTTTTG
1231663 AAATTCCTTTTGTTTTTAAATTATGGGATTTTCTT
1 AAATTCCTTTTGTTTTTAAATTATGGGATTTTCTT
1231698 CTCTAGAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 11 0.35
38 20 0.65
ACGTcount: A:0.22, C:0.08, G:0.10, T:0.60
Consensus pattern (38 bp):
AAATTCCTTTTGTTTTTAAATTATGGGATTTTCTTTTG
Found at i:1231921 original size:159 final size:161
Alignment explanation
Indices: 1231737--1232166 Score: 555
Period size: 159 Copynumber: 2.7 Consensus size: 161
1231727 TGGGTTTAAA
*
1231737 ATTTTGAAAATTTC-TCAAATATTATTTTTTTCATATTAATTTAGTTTTCAAAAATTCATTCATT
1 ATTTTCAAAA-TTCATCAAATATTATTTTTTTCATATTAATTTAGTTTTCAAAAATTCATTCATT
* *
1231801 TCCATAAATTTTGAATTTTTTCCTTAAAATTCCTTTTTTTTAAATACGAAG-TTTCTACTTCGCA
65 TCCATAAATTTTGAATTTTTTCCTTGAAATTCCTTTTTTTTAAATACGAAGTTTTCTACTCCGCA
* *
1231865 AATTTTTTCGCGAAGATTTTTCTTGGTTTTTT
130 AATTTTTTCACGAAGATTTTTCTTAGTTTTTT
* * *
1231897 ATTTTTAAAATTCATCAAA-ATTATTTATTTCATATTATTTTAGTTTTCAAAAATTCATTCATTT
1 ATTTTCAAAATTCATCAAATATTATTTTTTTCATATTAATTTAGTTTTCAAAAATTCATTCATTT
* * * * *
1231961 CCATAAATTTTGGATTTTTTCCATGAAATT-CTTCATTTTCTGAAATATGCAGTTTTCTACTCCG
66 CCATAAATTTTGAATTTTTTCCTTGAAATTCCTT--TTTT-TTAAATACGAAGTTTTCTACTCCG
* **
1232025 TAAATTTTTTCACGGGGATTTTTCTTAGTTTTTT
128 CAAATTTTTTCACGAAGATTTTTCTTAGTTTTTT
* * *
1232059 ATTTTCAAAATTCATCAAATATTATTATTTATTTCAAATTAATTTATTTTTCACAAATTCATTCA
1 ATTTTCAAAATTCATCAAATATTA-T-TTT-TTTCATATTAATTTAGTTTTCAAAAATTCATTCA
* * *
1232124 TTTTCATGAATTTTGAATTTTTTCCCTTGAAA-TCTTTTTTTTT
63 TTTCCATAAATTTTGAATTTTTT-CCTTGAAATTCCTTTTTTTT
1232167 TGAAAAACCG
Statistics
Matches: 232, Mismatches: 27, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
158 3 0.01
159 73 0.31
160 18 0.08
161 9 0.04
162 57 0.25
163 4 0.02
164 2 0.01
165 6 0.03
166 51 0.22
167 9 0.04
ACGTcount: A:0.29, C:0.13, G:0.06, T:0.53
Consensus pattern (161 bp):
ATTTTCAAAATTCATCAAATATTATTTTTTTCATATTAATTTAGTTTTCAAAAATTCATTCATTT
CCATAAATTTTGAATTTTTTCCTTGAAATTCCTTTTTTTTAAATACGAAGTTTTCTACTCCGCAA
ATTTTTTCACGAAGATTTTTCTTAGTTTTTT
Found at i:1231998 original size:21 final size:20
Alignment explanation
Indices: 1231958--1231999 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
1231948 AATTCATTCA
*
1231958 TTTCCATAAATTTTGGATTT
1 TTTCCATAAATTTTGCATTT
1231978 TTTCCATGAAATTCTT-CATTT
1 TTTCCAT-AAATT-TTGCATTT
1231999 T
1 T
1232000 CTGAAATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 7 0.37
21 10 0.53
22 2 0.11
ACGTcount: A:0.24, C:0.14, G:0.07, T:0.55
Consensus pattern (20 bp):
TTTCCATAAATTTTGCATTT
Found at i:1232214 original size:166 final size:164
Alignment explanation
Indices: 1231737--1232247 Score: 562
Period size: 166 Copynumber: 3.1 Consensus size: 164
1231727 TGGGTTTAAA
*
1231737 ATTTTGAAAATTTC-TCAAATATTA-T-TTT-TTTCATATTAATTTAGTTTTCAAAAATTCATTC
1 ATTTTTAAAA-TTCATCAAATATTATTATTTATTTCATATTAATTTAGTTTTCAAAAATTCATTC
* *
1231798 ATTTCCATAAATTTTGAATTTTTTCCTTAAAAT-TCCTTTTTTTT-AAATACGAAGTTTCTACTT
65 ATTTCCATAAATTTTGAATTTTTTCCTTGAAATCT-TTTTTTTTTGAAATACGAAGTTTCTACTT
* * *
1231861 CGCAAATTTTTTCGCGAAGATTTTTCTTGGTTTTTT
129 CGTAAATTTTTTCGGGAAGATTTTTCTTAGTTTTTT
*
1231897 ATTTTTAAAATTCATC-AA-A--ATTATTTATTTCATATTATTTTAGTTTTCAAAAATTCATTCA
1 ATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTTAGTTTTCAAAAATTCATTCA
* * ** * * * *
1231958 TTTCCATAAATTTTGGATTTTTTCCATGAAATTCTTCATTTTCTGAAATATGCAGTTTTCTACTC
66 TTTCCATAAATTTTGAATTTTTTCCTTGAAA-TCTTTTTTTTTTGAAATACGAAG-TTTCTACTT
1232023 CGTAAATTTTTTCACGGG--GATTTTTCTTAGTTTTTT
129 CGTAAATTTTTT--CGGGAAGATTTTTCTTAGTTTTTT
* * * *
1232059 ATTTTCAAAATTCATCAAATATTATTATTTATTTCAAATTAATTTATTTTTCACAAATTCATTCA
1 ATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTTAGTTTTCAAAAATTCATTCA
* * * *
1232124 TTTTCATGAATTTTGAATTTTTTCCCTTGAAATCTTTTTTTTTTGAAAAACCG-AGTATTATACT
66 TTTCCATAAATTTTGAATTTTTT-CCTTGAAATCTTTTTTTTTTGAAATA-CGAAGT-TTCTACT
* * * * * ***
1232188 TCATAAATTTTTTTGGGAAAATTTTTCTCAATTTAAA
128 TCGTAAATTTTTTCGGGAAGATTTTTCTTAGTTTTTT
*
1232225 ATTTTTAAAATTCATCTAATATT
1 ATTTTTAAAATTCATCAAATATT
1232248 GTCATTGAAC
Statistics
Matches: 291, Mismatches: 41, Indels: 32
0.80 0.11 0.09
Matches are distributed among these distances:
156 1 0.00
157 1 0.00
158 4 0.01
159 66 0.23
160 17 0.06
161 9 0.03
162 51 0.18
163 2 0.01
164 7 0.02
165 1 0.00
166 124 0.43
167 8 0.03
ACGTcount: A:0.30, C:0.12, G:0.06, T:0.51
Consensus pattern (164 bp):
ATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTTAGTTTTCAAAAATTCATTCA
TTTCCATAAATTTTGAATTTTTTCCTTGAAATCTTTTTTTTTTGAAATACGAAGTTTCTACTTCG
TAAATTTTTTCGGGAAGATTTTTCTTAGTTTTTT
Found at i:1232467 original size:9 final size:8
Alignment explanation
Indices: 1232442--1232473 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
1232432 GGTTTCAGCC
1232442 TTTT-ATT
1 TTTTAATT
1232449 TTTTAATT
1 TTTTAATT
1232457 TTTTAATT
1 TTTTAATT
1232465 TTTT-ATT
1 TTTTAATT
1232472 TT
1 TT
1232474 ATCTTATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 9 0.38
8 15 0.62
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTAATT
Found at i:1232812 original size:30 final size:32
Alignment explanation
Indices: 1232763--1232823 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 32
1232753 ACTTCACCTG
1232763 AAAGAAGAAAGAGAAAAAATA-G-AGAAAAAA
1 AAAGAAGAAAGAGAAAAAATAGGTAGAAAAAA
*
1232793 AAAGAA-AAATAGAAGAAAATAGGTAGAAAAA
1 AAAGAAGAAAGAGAA-AAAATAGGTAGAAAAA
1232824 TTAGAAAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 7 0.26
30 12 0.44
31 1 0.04
32 7 0.26
ACGTcount: A:0.74, C:0.00, G:0.20, T:0.07
Consensus pattern (32 bp):
AAAGAAGAAAGAGAAAAAATAGGTAGAAAAAA
Found at i:1233466 original size:50 final size:50
Alignment explanation
Indices: 1233411--1233510 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
1233401 TCCTTTGCTG
*
1233411 AATTTTTTTGTTGCTGTTATGGAGTTGATTTCATGCTTTAAATGATGTGT
1 AATTTTTTTGTTGCTATTATGGAGTTGATTTCATGCTTTAAATGATGTGT
*
1233461 AATTTTTTTGTTGCTATTGTGGAGTTGATTTCATGCTTTAAATGATGTGT
1 AATTTTTTTGTTGCTATTATGGAGTTGATTTCATGCTTTAAATGATGTGT
1233511 TCCCATGTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.20, C:0.06, G:0.22, T:0.52
Consensus pattern (50 bp):
AATTTTTTTGTTGCTATTATGGAGTTGATTTCATGCTTTAAATGATGTGT
Found at i:1233983 original size:5 final size:5
Alignment explanation
Indices: 1233973--1233998 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
1233963 TAGGGGCATA
1233973 AAATT AAATT AAATT AAATT AAATT A
1 AAATT AAATT AAATT AAATT AAATT A
1233999 GTATTATTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AAATT
Found at i:1233996 original size:98 final size:99
Alignment explanation
Indices: 1233874--1234074 Score: 287
Period size: 98 Copynumber: 2.0 Consensus size: 99
1233864 TGGCATTTTC
* * * *
1233874 AAAAATAAATAAAATTAACGTAAATTGGTATTATTGAGATAAATTTTAATATTTATTTTTTCTAA
1 AAAAATAAATAAAATTAAAGTAAATTAGTATTATTGAGATAAATTCTAATATTTATTTTTCCTAA
*
1233939 TATTTAATATT-CTATGGGCATCCGTAGGGGCAT
66 TATTTAATATTCCTATGGGCATCCGCAGGGGCAT
* * * *
1233972 AAAATTAAATTAAATTAAATTAAATTAGTATTATTGGGATAAATTCTAATATTTATTTTTCCTAA
1 AAAAATAAATAAAATTAAAGTAAATTAGTATTATTGAGATAAATTCTAATATTTATTTTTCCTAA
* * *
1234037 TCTTTTATATTCCTATGGGCATCCGCAGGGGTAT
66 TATTTAATATTCCTATGGGCATCCGCAGGGGCAT
1234071 AAAA
1 AAAA
1234075 GATTTCAAAA
Statistics
Matches: 90, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
98 66 0.73
99 24 0.27
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.41
Consensus pattern (99 bp):
AAAAATAAATAAAATTAAAGTAAATTAGTATTATTGAGATAAATTCTAATATTTATTTTTCCTAA
TATTTAATATTCCTATGGGCATCCGCAGGGGCAT
Found at i:1240970 original size:50 final size:49
Alignment explanation
Indices: 1240916--1241076 Score: 184
Period size: 50 Copynumber: 3.1 Consensus size: 49
1240906 AGAATTTATA
*
1240916 AATTTTTATTA-TTTTAAATAGTAATTCGAGATTTAATATAAATATTATTT
1 AATTTTTATTATTTTTAAATAGTAATT-GATATTTAATATAAATATT-TTT
*
1240966 AATTTTTTTATTATTTTTAAATAGTAATTGATATTTAATTTAAAAATATTTTT
1 AA--TTTTTATTATTTTTAAATAGTAATTGATATTTAA--TATAAATATTTTT
*
1241019 -ATTTTTATTATTTTTAAATAATAATTTTG-TATTTAATATAAATAATTTTT
1 AATTTTTATTATTTTTAAATAGTAA--TTGATATTTAATATAAAT-ATTTTT
1241069 AAATTTTT
1 -AATTTTT
1241077 TGAATGAGTA
Statistics
Matches: 97, Mismatches: 4, Indels: 18
0.82 0.03 0.15
Matches are distributed among these distances:
49 6 0.06
50 30 0.31
51 7 0.07
52 27 0.28
53 18 0.19
54 9 0.09
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.57
Consensus pattern (49 bp):
AATTTTTATTATTTTTAAATAGTAATTGATATTTAATATAAATATTTTT
Found at i:1240974 original size:52 final size:52
Alignment explanation
Indices: 1240918--1241077 Score: 188
Period size: 52 Copynumber: 3.1 Consensus size: 52
1240908 AATTTATAAA
*
1240918 TTTTTATTA-TTTTAAATAGTAATTCGAGATTTAATATAAATATTATTTAATT
1 TTTTTATTATTTTTAAATAGTAATT-GATATTTAATATAAATATTATTTAATT
* *
1240970 TTTTTATTATTTTTAAATAGTAATTGATATTTAATTTAAA-AATATTT--TT
1 TTTTTATTATTTTTAAATAGTAATTGATATTTAATATAAATATTATTTAATT
* *
1241019 ATTTTTATTATTTTTAAATAATAATTTTG-TATTTAATATAAATAATT-TTTAAAT
1 -TTTTTATTATTTTTAAATAGTAA--TTGATATTTAATATAAAT-ATTATTTAATT
1241073 TTTTT
1 TTTTT
1241078 GAATGAGTAG
Statistics
Matches: 93, Mismatches: 7, Indels: 15
0.81 0.06 0.13
Matches are distributed among these distances:
49 2 0.02
50 22 0.24
51 18 0.19
52 28 0.30
53 22 0.24
54 1 0.01
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.58
Consensus pattern (52 bp):
TTTTTATTATTTTTAAATAGTAATTGATATTTAATATAAATATTATTTAATT
Found at i:1247803 original size:46 final size:46
Alignment explanation
Indices: 1247753--1247854 Score: 150
Period size: 46 Copynumber: 2.2 Consensus size: 46
1247743 TTTATTCGTT
* * *
1247753 CAAAAGTTATGAGTTGTTTGTTGGAGAGTTTGTAGTTTTATCCATA
1 CAAAAGCTATGAGATGTTTGTTGAAGAGTTTGTAGTTTTATCCATA
* **
1247799 CAAAAGCTATGAGATGTTTGTTGAAGGGTTTGTAGTTTTATTTATA
1 CAAAAGCTATGAGATGTTTGTTGAAGAGTTTGTAGTTTTATCCATA
1247845 CAAAAGCTAT
1 CAAAAGCTAT
1247855 ACAAGTTATT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.29, C:0.07, G:0.23, T:0.41
Consensus pattern (46 bp):
CAAAAGCTATGAGATGTTTGTTGAAGAGTTTGTAGTTTTATCCATA
Found at i:1247935 original size:47 final size:49
Alignment explanation
Indices: 1247823--1247945 Score: 124
Period size: 47 Copynumber: 2.6 Consensus size: 49
1247813 TGTTTGTTGA
* * * *
1247823 AGGGTTTGTAGTTTTATTTATACAAAAGCTATACAAGTTATTTGTAAGG
1 AGGGTTTGTAGATTTATTTGTACAAAAGCTATACAAGTTATTTATAAAG
* * * * * *
1247872 AAGGTTTATAAATTTATTTGTGCAAAAG-T-TATAAGTTTTTTATAAAG
1 AGGGTTTGTAGATTTATTTGTACAAAAGCTATACAAGTTATTTATAAAG
* *
1247919 AGGGTTTGTAGCTTTATTTGTTCAAAA
1 AGGGTTTGTAGATTTATTTGTACAAAA
1247946 ATTACAAACT
Statistics
Matches: 59, Mismatches: 15, Indels: 2
0.78 0.20 0.03
Matches are distributed among these distances:
47 36 0.61
48 1 0.02
49 22 0.37
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (49 bp):
AGGGTTTGTAGATTTATTTGTACAAAAGCTATACAAGTTATTTATAAAG
Found at i:1254051 original size:52 final size:52
Alignment explanation
Indices: 1253973--1254101 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
1253963 CGAAATATGA
* *
1253973 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
*
1254025 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
1254077 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1254102 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:1254114 original size:52 final size:51
Alignment explanation
Indices: 1253973--1254121 Score: 219
Period size: 52 Copynumber: 2.9 Consensus size: 51
1253963 CGAAATATGA
*
1253973 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* *
1254025 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
1254077 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1254122 ATGTATCGAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 87 0.98
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:1254128 original size:13 final size:13
Alignment explanation
Indices: 1254110--1254134 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1254100 CAAAGATCAG
1254110 TGTATCGATACAA
1 TGTATCGATACAA
1254123 TGTATCGATACA
1 TGTATCGATACA
1254135 TTTGAGTAAT
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:1255242 original size:13 final size:13
Alignment explanation
Indices: 1255224--1255248 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1255214 CAAAGATCAG
1255224 TGTATCGATACAA
1 TGTATCGATACAA
1255237 TGTATCGATACA
1 TGTATCGATACA
1255249 TTTAAGTGAT
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:1255326 original size:33 final size:33
Alignment explanation
Indices: 1255289--1255355 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1255279 AGTAGCTTAA
1255289 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1255322 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1255355 A
1 A
1255356 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1255329 original size:13 final size:13
Alignment explanation
Indices: 1255311--1255335 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1255301 CAAAAAAATA
1255311 TGTATCGATACAT
1 TGTATCGATACAT
1255324 TGTATCGATACA
1 TGTATCGATACA
1255336 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1256562 original size:46 final size:45
Alignment explanation
Indices: 1256504--1256633 Score: 129
Period size: 46 Copynumber: 2.8 Consensus size: 45
1256494 TTGTGAAGAT
* *
1256504 GGTTTCTATTTTATTCAGGCAAAAGCTACGAGTTATTTGTTAAAG
1 GGTTTGTATTTTATTCAGGCAAAAGCTACAAGTTATTTGTTAAAG
* * *
1256549 GGTTTGTAGTTTTATT-TGTGTAAAAGCTACAAGTTGTTTGTTAAAG
1 GGTTTGTA-TTTTATTCAG-GCAAAAGCTACAAGTTATTTGTTAAAG
* * * *
1256595 GCTTTGTAACTTTATTCAAGCAAAAAG-TAAAAGTTATTT
1 GGTTTGT-ATTTTATTCAGGC-AAAAGCTACAAGTTATTT
1256634 AAGTTATTTA
Statistics
Matches: 68, Mismatches: 12, Indels: 9
0.76 0.13 0.10
Matches are distributed among these distances:
45 8 0.12
46 54 0.79
47 6 0.09
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (45 bp):
GGTTTGTATTTTATTCAGGCAAAAGCTACAAGTTATTTGTTAAAG
Found at i:1259819 original size:52 final size:54
Alignment explanation
Indices: 1259685--1259836 Score: 182
Period size: 52 Copynumber: 2.8 Consensus size: 54
1259675 GAAAAGTGAT
* * * * * *
1259685 AAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAA
* ** * *
1259739 AAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G-A
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAA
1259792 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAA
1259837 GGTGCCAATG
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
52 35 0.43
53 6 0.07
54 5 0.06
55 35 0.43
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.25
Consensus pattern (54 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAA
Found at i:1259852 original size:42 final size:42
Alignment explanation
Indices: 1259793--1259878 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
1259783 AAAGATGGAA
*
1259793 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
1259835 AAGGTGCCAATGTGCTGATTCAAGGTCAGCTACATTGGACTT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
1259877 AA
1 AA
1259879 ATATGAAGGC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (42 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
Found at i:1260058 original size:30 final size:30
Alignment explanation
Indices: 1259999--1260521 Score: 354
Period size: 28 Copynumber: 17.7 Consensus size: 30
1259989 AGGTTTGCAT
*
1259999 CACTGACTTGTGGGCTTTT--AAAGGTTGC
1 CACTGACTTGTGGGCTTTTGAAAAGGGTGC
1260027 CACTGACTTGTGGGCTTTTGAAAAGGGTGC
1 CACTGACTTGTGGGCTTTTGAAAAGGGTGC
* ** *
1260057 CACTAACTTGTGGGCTTAAAAAGAAAAAGAGTGC
1 CACTGACTTGTGGGCTT---TTG-AAAAGGGTGC
* * * * *
1260091 TA-TAGAGTTGTGAGCTTTGGAAAAGAG-GC
1 CACT-GACTTGTGGGCTTTTGAAAAGGGTGC
* * *
1260120 CGCCGACTTGTGGGC-TTCGAAAAAGGGTGC
1 CACTGACTTGTGGGCTTTTG-AAAAGGGTGC
* *
1260150 CACTGATTTGTGGGC-TTTG--AAGGTTGC
1 CACTGACTTGTGGGCTTTTGAAAAGGGTGC
* * *
1260177 CACTAACTTGTGGGCTTTT--AAATGTTGC
1 CACTGACTTGTGGGCTTTTGAAAAGGGTGC
*
1260205 CACTGACTTGTGGGCTTTT--AAAGGTTGC
1 CACTGACTTGTGGGCTTTTGAAAAGGGTGC
*
1260233 CACTGACTTGTGGGCTTTT--AAAGGTTGC
1 CACTGACTTGTGGGCTTTTGAAAAGGGTGC
*
1260261 CACTGACTTGTGGGCTTTT--AAAGGTTGC
1 CACTGACTTGTGGGCTTTTGAAAAGGGTGC
1260289 CACTGACTTGTGGGCTTTTGAAAAGGGTGC
1 CACTGACTTGTGGGCTTTTGAAAAGGGTGC
* ** *
1260319 CACTAACTTGTGGGCTTAAAAAGAAAAAGAGTGC
1 CACTGACTTGTGGGCTT---TTG-AAAAGGGTGC
* * * * *
1260353 TA-TAGAGTTGTGAGCTTTGGAAAAGAG-GC
1 CACT-GACTTGTGGGCTTTTGAAAAGGGTGC
* * * *
1260382 CGCCGACTTGTGGGC-TTCGAAAAAAGGTGC
1 CACTGACTTGTGGGCTTTTG-AAAAGGGTGC
* *
1260412 CACTGATTTGTGGGC-TTTG--AAGGTTGC
1 CACTGACTTGTGGGCTTTTGAAAAGGGTGC
* ***
1260439 CACTAACTTGTGGGCTTTTGAAAAAAATGC
1 CACTGACTTGTGGGCTTTTGAAAAGGGTGC
* ***
1260469 CACTGACTCGTGGGC-TTTGAAAAAAAAATGC
1 CACTGACTTGTGGGCTTTTG--AAAAGGGTGC
*
1260500 CACTGACTTGTGGACTTTTGAA
1 CACTGACTTGTGGGCTTTTGAA
1260522 GGGTGATAAA
Statistics
Matches: 405, Mismatches: 62, Indels: 54
0.78 0.12 0.10
Matches are distributed among these distances:
27 39 0.10
28 140 0.35
29 37 0.09
30 116 0.29
31 25 0.06
32 4 0.01
33 4 0.01
34 40 0.10
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (30 bp):
CACTGACTTGTGGGCTTTTGAAAAGGGTGC
Found at i:1260442 original size:27 final size:26
Alignment explanation
Indices: 1260405--1260456 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
1260395 GCTTCGAAAA
* *
1260405 AAGGTGCCACTGATTTGTGGGCTTTG
1 AAGGTGCCACTAACTTGTGGGCTTTG
1260431 AAGGTTGCCACTAACTTGTGGGCTTT
1 AAGG-TGCCACTAACTTGTGGGCTTT
1260457 TGAAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.17, C:0.17, G:0.31, T:0.35
Consensus pattern (26 bp):
AAGGTGCCACTAACTTGTGGGCTTTG
Found at i:1261941 original size:1 final size:1
Alignment explanation
Indices: 1261937--1262010 Score: 76
Period size: 1 Copynumber: 74.0 Consensus size: 1
1261927 CCGGACCCCC
* * * * * ** *
1261937 TTTTTTGTTTTTGTTTTTTTTTTTTTGTTTTTTTGTTTTTTTGTTTTTTTTCGTTTTTTTTTTGT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1262002 TTTTTTTTT
1 TTTTTTTTT
1262011 GGAGGACGCC
Statistics
Matches: 58, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 58 1.00
ACGTcount: A:0.00, C:0.01, G:0.09, T:0.89
Consensus pattern (1 bp):
T
Found at i:1261983 original size:29 final size:28
Alignment explanation
Indices: 1261937--1262010 Score: 107
Period size: 28 Copynumber: 2.6 Consensus size: 28
1261927 CCGGACCCCC
1261937 TTTTTTGTTTTTGTTTTTTTTTT--TTTGT
1 TTTTTTGTTTTT-TTTTTTTTTTCGTTT-T
1261965 TTTTTTGTTTTTTTGTTTTTTTTCGTTTT
1 TTTTTTGTTTTTTT-TTTTTTTTCGTTTT
1261994 TTTTTTGTTTTTTTTTT
1 TTTTTTGTTTTTTTTTT
1262011 GGAGGACGCC
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
27 2 0.05
28 23 0.53
29 15 0.35
30 3 0.07
ACGTcount: A:0.00, C:0.01, G:0.09, T:0.89
Consensus pattern (28 bp):
TTTTTTGTTTTTTTTTTTTTTTCGTTTT
Found at i:1271712 original size:10 final size:10
Alignment explanation
Indices: 1271697--1271723 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
1271687 ATGTATCAAG
1271697 CAAAAACAAA
1 CAAAAACAAA
1271707 CAAAAACAAA
1 CAAAAACAAA
1271717 CAAAAAC
1 CAAAAAC
1271724 TTAGTTAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.78, C:0.22, G:0.00, T:0.00
Consensus pattern (10 bp):
CAAAAACAAA
Found at i:1275905 original size:20 final size:20
Alignment explanation
Indices: 1275880--1275932 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
1275870 TTTGCCTGCA
1275880 TGTATCGATACATTGAATAG
1 TGTATCGATACATTGAATAG
1275900 TGTATCGATACATTGAATAG
1 TGTATCGATACATTGAATAG
1275920 TGTATCGATACAT
1 TGTATCGATACAT
1275933 CTGGGCAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTGAATAG
Found at i:1275978 original size:52 final size:52
Alignment explanation
Indices: 1275900--1276015 Score: 198
Period size: 52 Copynumber: 2.2 Consensus size: 52
1275890 CATTGAATAG
*
1275900 TGTATCGATACATTGAATAGTGTATCGATACATCTGGGCAAATTTGCCTGCA
1 TGTATCGATACATTGAATAATGTATCGATACATCTGGGCAAATTTGCCTGCA
*
1275952 TGTATCGATACATTTTAA-AATGTATCGATACATCTGGGCAAATTTGCCTGCA
1 TGTATCGATACA-TTGAATAATGTATCGATACATCTGGGCAAATTTGCCTGCA
1276004 TGTATCGATACA
1 TGTATCGATACA
1276016 AAGATCAGTG
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
52 57 0.93
53 4 0.07
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (52 bp):
TGTATCGATACATTGAATAATGTATCGATACATCTGGGCAAATTTGCCTGCA
Found at i:1276028 original size:52 final size:51
Alignment explanation
Indices: 1275900--1276035 Score: 191
Period size: 52 Copynumber: 2.6 Consensus size: 51
1275890 CATTGAATAG
*
1275900 TGTATCGATACATTGAATAGTGTATCGATACATCTGGGCAAATTTGCCTGCA
1 TGTATCGATACAATG-ATAGTGTATCGATACATCTGGGCAAATTTGCCTGCA
* * * *
1275952 TGTATCGATACATTTTAAAATGTATCGATACATCTGGGCAAATTTGCCTGCA
1 TGTATCGATACA-ATGATAGTGTATCGATACATCTGGGCAAATTTGCCTGCA
*
1276004 TGTATCGATACAAAGATCAGTGTATCGATACA
1 TGTATCGATACAATGAT-AGTGTATCGATACA
1276036 ATGTATCGAT
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
51 1 0.01
52 71 0.96
53 2 0.03
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (51 bp):
TGTATCGATACAATGATAGTGTATCGATACATCTGGGCAAATTTGCCTGCA
Found at i:1276042 original size:13 final size:13
Alignment explanation
Indices: 1276024--1276048 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1276014 CAAAGATCAG
1276024 TGTATCGATACAA
1 TGTATCGATACAA
1276037 TGTATCGATACA
1 TGTATCGATACA
1276049 TTTAAGTGAT
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:1276116 original size:20 final size:20
Alignment explanation
Indices: 1276087--1276144 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
1276077 GCAGTAGCTT
1276087 AAAT-TGTATCGATACAAAA
1 AAATATGTATCGATACAAAA
*
1276106 AAATATGTATCGATACAACA
1 AAATATGTATCGATACAAAA
***
1276126 CTTTATGTATCGATACAAA
1 AAATATGTATCGATACAAA
1276145 TCATTGAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.29
Consensus pattern (20 bp):
AAATATGTATCGATACAAAA
Found at i:1277349 original size:46 final size:45
Alignment explanation
Indices: 1277291--1277420 Score: 129
Period size: 46 Copynumber: 2.8 Consensus size: 45
1277281 TTGTGAAGAT
* *
1277291 GGTTTCTATTTTATTCAGGCAAAAGCTACGAGTTATTTGTTAAAG
1 GGTTTGTATTTTATTCAGGCAAAAGCTACAAGTTATTTGTTAAAG
* * *
1277336 GGTTTGTAGTTTTATT-TGTGTAAAAGCTACAAGTTGTTTGTTAAAG
1 GGTTTGTA-TTTTATTCAG-GCAAAAGCTACAAGTTATTTGTTAAAG
* * * *
1277382 GCTTTGTAACTTTATTCAAGCAAAAAG-TAAAAGTTATTT
1 GGTTTGT-ATTTTATTCAGGC-AAAAGCTACAAGTTATTT
1277421 AAGTTATTTA
Statistics
Matches: 68, Mismatches: 12, Indels: 9
0.76 0.13 0.10
Matches are distributed among these distances:
45 8 0.12
46 54 0.79
47 6 0.09
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (45 bp):
GGTTTGTATTTTATTCAGGCAAAAGCTACAAGTTATTTGTTAAAG
Found at i:1279825 original size:139 final size:138
Alignment explanation
Indices: 1279586--1279861 Score: 351
Period size: 139 Copynumber: 2.0 Consensus size: 138
1279576 ATCTTTTTAA
* *
1279586 ATGCTAAAATGAAATTTCTTAAAGCATGTAACCCAAGTTTTTTGTAGAAATTTGGAATTCACTAT
1 ATGCTAAAATGAAATTTCTTAAAGCATGAAACCAAAGTTTTTTGTAGAAATTTGGAATTCACTAT
* * * *
1279651 TCCTTCTACTTATGAAAGAGGCAAAGCGTAGAGTTTTTGTT-AAATTGATTTTTTTGGTTTAATG
66 TCCTCCTACTTATGAAAGAGGCAAAGCGTAAAGTTTTTGTTAAAATT-ATTTTCTAGGTTTAATG
1279715 TTAAAAAAT
130 TTAAAAAAT
* ** * * *
1279724 ATGCTAAAATGAATTTTCTTATTGTATGAAATCAAAGTTTTTTGGTATAAATTTGGAATTCACTA
1 ATGCTAAAATGAAATTTCTTAAAGCATGAAACCAAAGTTTTTT-GTAGAAATTTGGAATTCACTA
* * *
1279789 TAT-CTCCTGCTTATGAAA-AGGGTAAAGTGTAAAGTTTTTGTTAAAATTATTTTCTAGGTTTAA
65 T-TCCTCCTACTTATGAAAGA-GGCAAAGCGTAAAGTTTTTGTTAAAATTATTTTCTAGGTTTAA
*
1279852 TTTTAAAAAA
128 TGTTAAAAAA
1279862 GGTTGTTTTT
Statistics
Matches: 118, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
138 37 0.31
139 75 0.64
140 6 0.05
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (138 bp):
ATGCTAAAATGAAATTTCTTAAAGCATGAAACCAAAGTTTTTTGTAGAAATTTGGAATTCACTAT
TCCTCCTACTTATGAAAGAGGCAAAGCGTAAAGTTTTTGTTAAAATTATTTTCTAGGTTTAATGT
TAAAAAAT
Found at i:1285559 original size:33 final size:33
Alignment explanation
Indices: 1285517--1285586 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
1285507 TTCAACGATT
1285517 TGTATCGATACATAAAATGTTGTACCGATACAA
1 TGTATCGATACATAAAATGTTGTACCGATACAA
*** * *
1285550 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTACCGATACAA
1285583 TGTA
1 TGTA
1285587 AGCTATTGCA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTACCGATACAA
Found at i:1285766 original size:52 final size:53
Alignment explanation
Indices: 1285659--1285780 Score: 212
Period size: 52 Copynumber: 2.3 Consensus size: 53
1285649 CACTGATCTT
*
1285659 TGTATCGATACATGCAGGCAAAATTTGCCCAGATGTATCGATACATTTTATAA
1 TGTATCGATACATGCAGGCAAAATTTGCCCAGATGTATCGATACATATTATAA
1285712 TGTATCGATACATGCAGGCAAAA-TTGCCCAGATGTATCGATACACTATTA-AA
1 TGTATCGATACATGCAGGCAAAATTTGCCCAGATGTATCGATACA-TATTATAA
1285764 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
1285781 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
52 40 0.60
53 27 0.40
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (53 bp):
TGTATCGATACATGCAGGCAAAATTTGCCCAGATGTATCGATACATATTATAA
Found at i:1293903 original size:16 final size:17
Alignment explanation
Indices: 1293878--1293915 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
1293868 TTGTGCTGTA
* *
1293878 ATCATGACATC-ATGAC
1 ATCATAACATCAATAAC
1293894 ATCATAACATCAATAAC
1 ATCATAACATCAATAAC
1293911 ATCAT
1 ATCAT
1293916 TATTTGCATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.45, C:0.24, G:0.05, T:0.26
Consensus pattern (17 bp):
ATCATAACATCAATAAC
Found at i:1294077 original size:31 final size:31
Alignment explanation
Indices: 1294039--1294127 Score: 146
Period size: 31 Copynumber: 2.9 Consensus size: 31
1294029 AAAAAAAAGG
1294039 AGTCCACGACTCAGTGGCAATCTCTTCTCAA
1 AGTCCACGACTCAGTGGCAATCTCTTCTCAA
*
1294070 AGTCCACGACTCAGTGGCAATCTCTGCTCAA
1 AGTCCACGACTCAGTGGCAATCTCTTCTCAA
*
1294101 AGTCCACGACGCAGTGGC-ATC-CTTCTC
1 AGTCCACGACTCAGTGGCAATCTCTTCTC
1294128 TTTAAAGCCA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
29 5 0.09
30 3 0.05
31 47 0.85
ACGTcount: A:0.24, C:0.34, G:0.19, T:0.24
Consensus pattern (31 bp):
AGTCCACGACTCAGTGGCAATCTCTTCTCAA
Found at i:1294149 original size:62 final size:62
Alignment explanation
Indices: 1294039--1294280 Score: 169
Period size: 63 Copynumber: 3.9 Consensus size: 62
1294029 AAAAAAAAGG
* * *
1294039 AGTCCACGACTCAGTGGCAATCTCTTCTC---AAAGTCCACGACTCAGTGGCAATCTCTGCTCAA
1 AGTCCACGACTCAGTGGC-ATC-CTTCTCTTTAAAGCCCACAACTCCGTGGCAA-CTCTGCTCAA
* ** *
1294101 AGTCCACGACGCAGTGGCATCCTTCTCTTTAAAG-CCACAACTCCGTGGC-ACTCTTTTTAA
1 AGTCCACGACTCAGTGGCATCCTTCTCTTTAAAGCCCACAACTCCGTGGCAACTCTGCTCAA
* * * ** *
1294161 AGCCCACAACTCCGTGGCA-CCTTCTTCTTTTCAAAGCCCACAACTCCGTGGC-ACTCTTTTTAA
1 AGTCCACGACTCAGTGGCATCCTTC-TC-TTT-AAAGCCCACAACTCCGTGGCAACTCTGCTCAA
* * * * * *
1294224 AGCCCACAACTCCGTGGCA-CCTTTTTCTTTTTAAAGGCCACAACTACGTGGC-ACTCT
1 AGTCCACGACTCAGTGGCATCC---TTCTCTTTAAAGCCCACAACTCCGTGGCAACTCT
1294281 TTTTCCTTCT
Statistics
Matches: 157, Mismatches: 13, Indels: 19
0.83 0.07 0.10
Matches are distributed among these distances:
59 5 0.03
60 30 0.19
61 7 0.04
62 34 0.22
63 74 0.47
64 3 0.02
65 1 0.01
66 3 0.02
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (62 bp):
AGTCCACGACTCAGTGGCATCCTTCTCTTTAAAGCCCACAACTCCGTGGCAACTCTGCTCAA
Found at i:1294197 original size:34 final size:33
Alignment explanation
Indices: 1294114--1294414 Score: 295
Period size: 34 Copynumber: 9.2 Consensus size: 33
1294104 CCACGACGCA
1294114 GTGGCATCCTTC-TC-TTTAAAG-CCACAACTCC
1 GTGGCA-CCTTCTTCTTTTAAAGCCCACAACTCC
1294145 GTGGCA-C-TC-T-TTTTAAAGCCCACAACTCC
1 GTGGCACCTTCTTCTTTTAAAGCCCACAACTCC
1294174 GTGGCACCTTCTTCTTTTCAAAGCCCACAACTCC
1 GTGGCACCTTCTTCTTTT-AAAGCCCACAACTCC
1294208 GTGGCA-C-TC-T-TTTTAAAGCCCACAACTCC
1 GTGGCACCTTCTTCTTTTAAAGCCCACAACTCC
* * *
1294237 GTGGCACCTTTTTCTTTTTAAAGGCCACAACTAC
1 GTGGCACCTTCTTC-TTTTAAAGCCCACAACTCC
* *
1294271 GTGGCACTCTTTTTCCTTCT-AAGCCCACAACTCC
1 GTGGCAC-CTTCTT-CTTTTAAAGCCCACAACTCC
* *
1294305 GTGGCACTCTTTTTCCTTCT-AAGCCCACAACTCC
1 GTGGCAC-CTTCTT-CTTTTAAAGCCCACAACTCC
*
1294339 GTGGCACTCTTTTTTCCCTTTTAAAGCCCACAACTCC
1 GTGGCAC-C-TTCTT--CTTTTAAAGCCCACAACTCC
* * * * *
1294376 GTGGCACCTTGTTCTTTTTAAGTCTACAACTTC
1 GTGGCACCTTCTTCTTTTAAAGCCCACAACTCC
1294409 GTGGCA
1 GTGGCA
1294415 TCTTTCACCC
Statistics
Matches: 241, Mismatches: 12, Indels: 32
0.85 0.04 0.11
Matches are distributed among these distances:
28 10 0.04
29 38 0.16
30 6 0.02
31 10 0.04
32 4 0.02
33 27 0.11
34 100 0.41
35 18 0.07
36 7 0.03
37 21 0.09
ACGTcount: A:0.21, C:0.34, G:0.14, T:0.32
Consensus pattern (33 bp):
GTGGCACCTTCTTCTTTTAAAGCCCACAACTCC
Found at i:1294212 original size:63 final size:62
Alignment explanation
Indices: 1294114--1294419 Score: 316
Period size: 63 Copynumber: 4.7 Consensus size: 62
1294104 CCACGACGCA
1294114 GTGGCATCCTTC-TC-TTTAAAG-CCACAACTCCGTGGCACTCTTTTTAAAGCCCACAACTCC
1 GTGGCA-CCTTCTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTAAAGCCCACAACTCC
1294174 GTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTAAAGCCCACAACTCC
1 GTGGCACCTTCTTCTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTAAAGCCCACAACTCC
* * * *
1294237 GTGGCACCTTTTTCTTTTTAAAGGCCACAACTACGTGGCACTCTTTTTCCTTCTAAGCCCACAAC
1 GTGGCACCTTCTTC-TTTTAAAGCCCACAACTCCGTGGCACTC--TTT--TT-AAAGCCCACAAC
1294302 TCC
60 TCC
* *
1294305 GTGGCACTCTTTTTCCTTCT-AAGCCCACAACTCCGTGGCACTCTTTTTTCCCTTTTAAAGCCCA
1 GTGGCAC-CTTCTT-CTTTTAAAGCCCACAACTCCGTGGCACTC-----T---TTTTAAAGCCCA
1294369 CAACTCC
56 CAACTCC
* * * * *
1294376 GTGGCACCTTGTTCTTTTTAAGTCTACAACTTCGTGGCA-TCTTT
1 GTGGCACCTTCTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTT
1294420 CACCCTTTCT
Statistics
Matches: 214, Mismatches: 13, Indels: 37
0.81 0.05 0.14
Matches are distributed among these distances:
59 5 0.02
60 8 0.04
61 5 0.02
62 4 0.02
63 74 0.35
64 5 0.02
65 3 0.01
67 2 0.01
68 42 0.20
69 15 0.07
70 23 0.11
71 24 0.11
72 2 0.01
74 2 0.01
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.33
Consensus pattern (62 bp):
GTGGCACCTTCTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTAAAGCCCACAACTCC
Found at i:1294274 original size:97 final size:97
Alignment explanation
Indices: 1294128--1294419 Score: 341
Period size: 97 Copynumber: 3.0 Consensus size: 97
1294118 CATCCTTCTC
1294128 TTTAAAG-CCACAACTCCGTGGCA-C----TCTTTTTAAAGCCCACAACTCCGTGGCACCTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTCTT
*
1294187 CTTTTCAAAGCCCACAACTCCGTGGCACTCTT
66 CTTTTCTAAGCCCACAACTCCGTGGCACTCTT
* * *
1294219 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGGCCACAACTACGTGGCACTCTTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCAC-CTTCT
*
1294284 TC-CTTCTAAGCCCACAACTCCGTGGCACTCTTTT
65 TCTTTTCTAAGCCCACAACTCCGTGGCACTC--TT
* *
1294318 TCCTTCTAAGCCCACAACTCCGTGGCACTCTTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCAC
1 T--TT-AAAGCCCACAACTCCGTGGCAC-C-TTTTT-CTTTTTAAAGCCCACAACTCCGTGGCAC
* * * *
1294383 CTTGTTCTTTT-TAAGTCTACAACTTCGTGGCA-TCTT
60 CTTCTTCTTTTCTAAGCCCACAACTCCGTGGCACTCTT
1294419 T
1 T
1294420 CACCCTTTCT
Statistics
Matches: 171, Mismatches: 14, Indels: 22
0.83 0.07 0.11
Matches are distributed among these distances:
91 7 0.04
92 16 0.09
93 1 0.01
97 53 0.31
98 6 0.04
99 3 0.02
101 5 0.03
102 21 0.12
103 3 0.02
104 29 0.17
105 27 0.16
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (97 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTCTT
CTTTTCTAAGCCCACAACTCCGTGGCACTCTT
Found at i:1294460 original size:139 final size:137
Alignment explanation
Indices: 1294123--1294472 Score: 335
Period size: 139 Copynumber: 2.6 Consensus size: 137
1294113 AGTGGCATCC
* * *
1294123 TTCTCTTTAAA-GCCACAACTCCGTGGCACTCTTT----TT-AAAGCCCACAACTCCGTGGCAC-
1 TTCTTTTTAAAGGCCACAACTACGTGGCACTCTTTACCCTTCTAAGCCCACAACTCCGTGGCACT
* *
1294181 CTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACTC-----T---TTTTAAAGCCCACAACTCCG
66 C-T-TTCCTCT-AAAGCCCACAACTCCGTGGCACTCTTTTTTCCCTTTTAAAGCCCACAACTCCG
*
1294238 TGGCACCTTT
128 TGGCACCTTG
**
1294248 TTCTTTTTAAAGGCCACAACTACGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACT
1 TTCTTTTTAAAGGCCACAACTACGTGGCACTCTTTACCCTTCTAAGCCCACAACTCCGTGGCACT
1294313 CTTTTTCCTTCT-AAGCCCACAACTCCGTGGCACTCTTTTTTCCCTTTTAAAGCCCACAACTCCG
66 C--TTTCC-TCTAAAGCCCACAACTCCGTGGCACTCTTTTTTCCCTTTTAAAGCCCACAACTCCG
1294377 TGGCACCTTG
128 TGGCACCTTG
* * * * *
1294387 TTCTTTTT-AAGTCTACAACTTCGTGGCA-TCTTTCACCCTTTCTAAAGCCCACATAAGTCGGTG
1 TTCTTTTTAAAGGCCACAACTACGTGGCACTCTTT-ACCC-TTCT-AAGCCCAC--AACTCCGTG
1294450 GCAAC-C-TTCCTCTAAAGCCCACA
61 GC-ACTCTTTCCTCTAAAGCCCACA
1294473 CAAGTTGGTG
Statistics
Matches: 188, Mismatches: 13, Indels: 34
0.80 0.06 0.14
Matches are distributed among these distances:
125 10 0.05
126 22 0.12
130 2 0.01
131 44 0.23
132 4 0.02
133 4 0.02
136 1 0.01
137 5 0.03
138 22 0.12
139 54 0.29
140 8 0.04
142 10 0.05
143 2 0.01
ACGTcount: A:0.22, C:0.34, G:0.13, T:0.31
Consensus pattern (137 bp):
TTCTTTTTAAAGGCCACAACTACGTGGCACTCTTTACCCTTCTAAGCCCACAACTCCGTGGCACT
CTTTCCTCTAAAGCCCACAACTCCGTGGCACTCTTTTTTCCCTTTTAAAGCCCACAACTCCGTGG
CACCTTG
Found at i:1294469 original size:33 final size:33
Alignment explanation
Indices: 1294427--1294553 Score: 188
Period size: 33 Copynumber: 3.9 Consensus size: 33
1294417 TTTCACCCTT
*
1294427 TCTAAAGCCCACATAAGTCGGTGGCAACCTTCC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCTTCC
*
1294460 TCTAAAGCCCACACAAGTTGGTGGCAACCCTTCC
1 TCTAAAGCCCACACAAGTCGGTGGCAA-CCTTCC
*
1294494 -C-AAAGCCCACACAAGTTGGTGGCAACCATT-C
1 TCTAAAGCCCACACAAGTCGGTGGCAACC-TTCC
1294525 TCTAAAGCCCACACAAGTCGGTGGCAACC
1 TCTAAAGCCCACACAAGTCGGTGGCAACC
1294554 CTTCTAAGCC
Statistics
Matches: 87, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
31 3 0.03
32 27 0.31
33 51 0.59
34 6 0.07
ACGTcount: A:0.29, C:0.34, G:0.19, T:0.18
Consensus pattern (33 bp):
TCTAAAGCCCACACAAGTCGGTGGCAACCTTCC
Found at i:1294499 original size:65 final size:65
Alignment explanation
Indices: 1294421--1294557 Score: 213
Period size: 65 Copynumber: 2.1 Consensus size: 65
1294411 GGCATCTTTC
* * * *
1294421 ACCCTTTCTAAAGCCCACATAAGTCGGTGGCAACC-TTCCTCTAAAGCCCACACAAGTTGGTGGC
1 ACCCTTCCCAAAGCCCACACAAGTCGGTGGCAACCATT-CTCTAAAGCCCACACAAGTCGGTGGC
1294485 A
65 A
*
1294486 ACCCTTCCCAAAGCCCACACAAGTTGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCCCAAAGCCCACACAAGTCGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGCA
1294551 ACCCTTC
1 ACCCTTC
1294558 TAAGCCCAAT
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
65 64 0.97
66 2 0.03
ACGTcount: A:0.28, C:0.35, G:0.18, T:0.20
Consensus pattern (65 bp):
ACCCTTCCCAAAGCCCACACAAGTCGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGCA
Found at i:1294616 original size:49 final size:49
Alignment explanation
Indices: 1294558--1295661 Score: 1372
Period size: 49 Copynumber: 22.7 Consensus size: 49
1294548 GCAACCCTTC
* * * *
1294558 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1294607 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1294655 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
1294698 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTCCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-CTT-CATCTT
* *
1294750 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* * *
1294802 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCATCTTTTCCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-CTT-CATCTT
* * *
1294854 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1294903 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
1294952 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1295001 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CTTGCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT-CATCTT
* * *
1295050 TAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1295098 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
1295147 TAAGTACAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1295196 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
1295245 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1295294 TAAGTCCAATGTAGCTGGCCTTTAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
1295337 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1295386 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1295435 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1295483 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1295532 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * ***
1295575 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCAACACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
**
1295627 T-AGTTTAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
1295662 ACATCCTTTT
Statistics
Matches: 922, Mismatches: 101, Indels: 62
0.85 0.09 0.06
Matches are distributed among these distances:
43 115 0.12
45 2 0.00
47 1 0.00
48 131 0.14
49 500 0.54
50 4 0.00
51 30 0.03
52 138 0.15
53 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:1295001 original size:98 final size:98
Alignment explanation
Indices: 1294553--1295576 Score: 1513
Period size: 98 Copynumber: 10.5 Consensus size: 98
1294543 CGGTGGCAAC
* * * *
1294553 CCTTCTAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATA
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATG
*
1294618 TAGCTGGCCTTGAATCAGCACATTGGCACC-TCA
65 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
* * *
1294651 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTTTAAGTCCAATAT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
* * *
1294710 AGCTGGCCTTGAATCAGCATATTGGCATCTTTTCCA
66 AGCTGGCCTTGACTCAGCACATTGGCA-C-CTT-CA
1294746 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT--ATCTTTAAGTCCAA
* * *
1294811 TGTAGCTGGCCTTGAATCAGCATATTGGCATCTTTTCCA
63 TGTAGCTGGCCTTGACTCAGCACATTGGCA-C-CTT-CA
1294850 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
1294915 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
66 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
* * *
1294948 CCATTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
1295013 AGCTGGCCTTGACTCAGCACATTGGCA-CTTGCA
66 AGCTGGCCTTGACTCAGCACATTGGCACCTT-CA
*
1295046 CCATTAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
1295110 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
66 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
* *
1295143 CCATTAAGTACAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
1295208 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
66 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
* * *
1295241 CCATTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
* *
1295306 AGCTGGCCTTTAATCAGCACATTGG------CA
66 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
* * * *
1295333 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
1295398 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
66 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
* * * *
1295431 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
1295495 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
66 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
* * *
1295528 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTA
1295577 AGTCCAATAT
Statistics
Matches: 865, Mismatches: 38, Indels: 46
0.91 0.04 0.05
Matches are distributed among these distances:
91 41 0.05
92 84 0.10
94 1 0.00
95 43 0.05
96 2 0.00
97 226 0.26
98 325 0.38
99 2 0.00
100 1 0.00
101 42 0.05
103 3 0.00
104 95 0.11
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.31
Consensus pattern (98 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
Found at i:1295097 original size:195 final size:196
Alignment explanation
Indices: 1294558--1295927 Score: 1553
Period size: 195 Copynumber: 6.9 Consensus size: 196
1294548 GCAACCCTTC
* * * * *
1294558 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTTTAAGTCCAATGTAGCT
* *
1294623 GGCCTTGAATCAGCACATTGGCACC-TCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
66 GGCCTTGAATCAGCACATTGGCACCTTCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
* * * *
1294687 ATTGGCA-C-----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTCCA
131 ATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-C-CTT-CA
*
1294746 CCTT
193 CCAT
1294750 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTTTT--ATCTTTAAGTCCAATGTA
* *
1294815 GCTGGCCTTGAATCAGCATATTGGCATCTTTTCCACCTTTAAGTCCAATATAGCTGGCCTTGAAT
63 GCTGGCCTTGAATCAGCACATTGGCA-C-CTT-CACCTTTAAGTCCAATATAGCTGGCCTTGAAT
1294880 CAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCT
125 CAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCT
1294945 TCACCAT
190 TCACCAT
*
1294952 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTTTAAGTCCAATGTAGCT
* *
1295017 GGCCTTGACTCAGCACATTGGCA-CTTGCACCATTAAGTCC-ATATAGCTGGCCTTGAATCAGCA
66 GGCCTTGAATCAGCACATTGGCACCTT-CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCA
1295080 TATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACC
130 TATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACC
1295145 AT
195 AT
* *
1295147 TAAGTACAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTTTAAGTCCAATGTAGCT
* * *
1295212 GGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGCCCAATATAGCTGGCCTTGAATCAGCAT
66 GGCCTTGAATCAGCACATTGGCACCTTCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
* * *
1295277 ATTGGCACTTTTATCTTTAAGTCCAATGTAGCTGGCCTTTAATCAGCACATTGGCACC-T-----
131 ATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCA
1295336 T
196 T
* * *
1295337 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-TCATCATCTTTAAGTCCAATGTAGC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACT-TTTATCTTTAAGTCCAATGTAGC
* * *
1295401 TGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCA
65 TGGCCTTGAATCAGCACATTGGCACCTTCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCA
* * *
1295466 CATTGGCACC-TCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATC
130 TATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACC
*
1295530 TT
195 AT
* * *
1295532 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC------CTTTAAGTCCAATATAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTTTAAGTCCAATGTAGCT
* *** * ** *
1295591 GGCCTTGAATCAGCATATCAACACCTTTTCCATCTTT-AGTTTAATGTAGCTGGCCTTGAATCAG
66 GGCCTTGAATCAGCACATTGGCACC--TT-CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAG
* * * * * * * * *
1295655 CACATTGACATCCTTTTTCATCATCTTTAAGCCCAATATCGTTGG-CTGTGAATCATCATATTGG
128 CATATTGGCA-CC---TT--T-ATCTTTAAGTCCAATGTAGCTGGCCT-TGACTCAGCACATTGG
1295719 CATCTTTATCACTTTTCTCATCTTCATCTT
185 ---C---A-C-C---T-TCA-C--CA---T
* * * * * *
1295749 TAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCAC-CTCACCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTTTAAGTCCAATGTAGCT
1295813 GGCCTTGAATCAGCACATTGG------CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
66 GGCCTTGAATCAGCACATTGGCACCTTCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
* * *
1295872 ATCGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
131 ATTGGCACC-TTT--ATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTG
1295928 ACATCCTTTT
Statistics
Matches: 1034, Mismatches: 83, Indels: 104
0.85 0.07 0.09
Matches are distributed among these distances:
189 83 0.08
190 129 0.12
191 36 0.03
192 46 0.04
193 3 0.00
195 267 0.26
196 98 0.09
198 3 0.00
199 117 0.11
200 1 0.00
201 5 0.00
202 44 0.04
203 2 0.00
204 1 0.00
205 40 0.04
206 1 0.00
207 1 0.00
209 1 0.00
210 33 0.03
211 8 0.01
213 8 0.01
214 32 0.03
217 40 0.04
222 35 0.03
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (196 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTTTAAGTCCAATGTAGCT
GGCCTTGAATCAGCACATTGGCACCTTCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
ATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCA
T
Found at i:1295390 original size:92 final size:93
Alignment explanation
Indices: 1295244--1295605 Score: 468
Period size: 92 Copynumber: 3.9 Consensus size: 93
1295234 ACCTTCACCA
* * * *
1295244 TTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTTTAAGTCCAATGTAGC
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC-ATCATCTTTAAGTCCAATGTAGC
*
1295309 TGGCCTTTAATCAGCACATTGGCA-C-CT
65 TGGCCTTGAATCAGCACATTGGCACCACT
* *
1295336 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGTAGC
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-CATCATCTTTAAGTCCAATGTAGC
*
1295401 TGGCCTTGACTCAGCACATTGGCACCTTCATCT
65 TGGCCTTGAATCAGCACATTGGCA-C--CA-CT
* *
1295434 TTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCCAATGTAGCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACATCATCTTTAAGTCCAATGTAGCT
*
1295499 GGCCTTGACTCAGCACATTGGCACCTTCATCT
66 GGCCTTGAATCAGCACATTGGCA-C--CA-CT
* *
1295531 TTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG--CA-C--CTTTAAGTCCAATATAGCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACATCATCTTTAAGTCCAATGTAGCT
1295591 GGCCTTGAATCAGCA
66 GGCCTTGAATCAGCA
1295606 TATCAACACC
Statistics
Matches: 250, Mismatches: 13, Indels: 14
0.90 0.05 0.05
Matches are distributed among these distances:
92 113 0.45
93 1 0.00
94 1 0.00
95 1 0.00
96 1 0.00
97 94 0.38
98 39 0.16
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (93 bp):
TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACATCATCTTTAAGTCCAATGTAGCT
GGCCTTGAATCAGCACATTGGCACCACT
Found at i:1295817 original size:48 final size:48
Alignment explanation
Indices: 1295746--1295927 Score: 239
Period size: 43 Copynumber: 3.8 Consensus size: 48
1295736 TCATCTTCAT
*
1295746 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCACCTCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCAC
1295794 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG-----CAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCAC
* * * *
1295837 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC---T-CAC
*
1295889 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
1295928 ACATCCTTTT
Statistics
Matches: 116, Mismatches: 9, Indels: 14
0.83 0.06 0.10
Matches are distributed among these distances:
43 40 0.34
48 39 0.34
52 37 0.32
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (48 bp):
CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCAC
Found at i:1295926 original size:95 final size:92
Alignment explanation
Indices: 1295746--1295936 Score: 276
Period size: 95 Copynumber: 2.0 Consensus size: 92
1295736 TCATCTTCAT
* *
1295746 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCACCTCACCTTTAAGTCCAATGTAG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAACACATCGGCACCTCACCTTTAAGTCCAATGTAG
*
1295811 CTGGCCTTGAATCAGCACATTGGCA-C
66 CTGGCCTTGAATCAGCACATTGACATC
* * * *
1295837 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAACACATCGGCACC---T-CACCTTTAAGTCCAAT
1295902 GTAGCTGGCCTTGAATCAGCACATTGACATC
62 GTAGCTGGCCTTGAATCAGCACATTGACATC
1295933 CTTT
1 CTTT
1295937 TTCATCATCT
Statistics
Matches: 88, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
91 40 0.45
94 1 0.01
95 42 0.48
96 5 0.06
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (92 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAACACATCGGCACCTCACCTTTAAGTCCAATGTAG
CTGGCCTTGAATCAGCACATTGACATC
Found at i:1295973 original size:56 final size:52
Alignment explanation
Indices: 1295837--1295975 Score: 161
Period size: 52 Copynumber: 2.6 Consensus size: 52
1295827 ACATTGGCAC
* *
1295837 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCCAT
* * *
1295889 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACA-CC-TTTTC--CAT
* * * *
1295945 CTTTAAGCCCAATATCGTTGGCCGTGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
1295976 ACATATTGGC
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
52 37 0.51
53 2 0.03
54 5 0.07
56 28 0.39
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCCAT
Found at i:1295992 original size:266 final size:265
Alignment explanation
Indices: 1295476--1296056 Score: 1063
Period size: 266 Copynumber: 2.2 Consensus size: 265
1295466 CATTGGCACC
* *
1295476 TCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAA
1 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTTTAAGTCCAA
1295541 TGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCA
65 TGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCA
*
1295606 TATCAACACCTTTTCCATCTTTAGTTTAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTT
130 TATCAACACCTTTTCCATCTTTAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTT
* *
1295671 TTCATCATCTTTAAGCCCAATATCGTTGGCTGTGAATCATCATATTGGCATCTTTATCACTTTTC
195 TTCATCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTC
1295736 TCATCT
260 TCATCT
*
1295742 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCACCTCACCTTTAAGTCCAAT
1 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAAT
1295807 GTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
66 GTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
**
1295872 ATCGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTT
131 ATCAACACCTTTTCCATCTTT-AGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTT
1295937 TTCATCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTC
195 TTCATCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTC
1296002 TCATCT
260 TCATCT
*
1296008 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCT
1 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCT
1296057 TTATCTGTAA
Statistics
Matches: 304, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
265 100 0.33
266 204 0.67
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (265 bp):
TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAAT
GTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
ATCAACACCTTTTCCATCTTTAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTT
TCATCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCT
CATCT
Found at i:1296840 original size:13 final size:13
Alignment explanation
Indices: 1296822--1296846 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1296812 CATAAAATGT
1296822 TGTATCGATACAA
1 TGTATCGATACAA
1296835 TGTATCGATACA
1 TGTATCGATACA
1296847 TATTTTTTTG
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:1296844 original size:33 final size:33
Alignment explanation
Indices: 1296802--1296871 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1296792 TTCAACGATT
1296802 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1296835 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1296868 TGTA
1 TGTA
1296872 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1297000 original size:52 final size:52
Alignment explanation
Indices: 1296943--1297063 Score: 208
Period size: 52 Copynumber: 2.3 Consensus size: 52
1296933 CACTGATCTT
* *
1296943 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACA-TTTTATAA
1 TGTATCGATACATGCAGGCAAAATTGCCCAGATGTATCGATACACTATTA-AA
1296995 TGTATCGATACATGCAGGCAAAATTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAAATTGCCCAGATGTATCGATACACTATTAAA
1297047 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
1297064 ATAAATTTTC
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
52 62 0.94
53 4 0.06
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAAATTGCCCAGATGTATCGATACACTATTAAA
Found at i:1308818 original size:109 final size:108
Alignment explanation
Indices: 1308584--1308919 Score: 442
Period size: 109 Copynumber: 3.1 Consensus size: 108
1308574 AATTTACACG
* ** *
1308584 AAAAATGAATTATCATATATAAAGGGCATTCGTATATCACTTTATGACTCTAGATGATGACTTAT
1 AAAAATGAATTATCCTATATAAAGGGCATTCGTACGTCACTTTATGACTCTAGATGATGACCTAT
* * * *
1308649 TTTGGGGCCAATCTTGTGGTG-TCGAATTTACGTAATTAATGCA
66 TTCGAGGCCAATCTTTTGGTGCCCGAATTTACGTAATTAATG-A
* *
1308692 AAAAATGAATTATCCTATATAAAAGGCATTCGTACGTCACATTATGACTCTAGATGATGACCTAT
1 AAAAATGAATTATCCTATATAAAGGGCATTCGTACGTCACTTTATGACTCTAGATGATGACCTAT
* * *
1308757 TTCAAGGTCAATCTTTTAGTGCCCGAATTTACGTAATTAATGAA
66 TTCGAGGCCAATCTTTTGGTGCCCGAATTTACGTAATTAATG-A
* * ** *
1308801 AAAAATGAATTATCCTATGTAAAGGGCATTCGTACGTCGCTTTATGACTCTAGACAATGATCTAT
1 AAAAATGAATTATCCTATATAAAGGGCATTCGTACGTCACTTTATGACTCTAGATGATGACCTAT
* * *
1308866 TTCGAGGCCAAT-TCTTGGTGCCCGAATATTACGTAGTTAATGC
66 TTCGAGGCCAATCTTTTGGTGCCCGAAT-TTACGTAATTAATGA
1308909 AAAAATGAATT
1 AAAAATGAATT
1308920 CTAAATAGGC
Statistics
Matches: 199, Mismatches: 27, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
108 98 0.49
109 101 0.51
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (108 bp):
AAAAATGAATTATCCTATATAAAGGGCATTCGTACGTCACTTTATGACTCTAGATGATGACCTAT
TTCGAGGCCAATCTTTTGGTGCCCGAATTTACGTAATTAATGA
Found at i:1309293 original size:12 final size:12
Alignment explanation
Indices: 1309276--1309300 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1309266 TTGGTTAAGA
1309276 CATATCAGTGGG
1 CATATCAGTGGG
1309288 CATATCAGTGGG
1 CATATCAGTGGG
1309300 C
1 C
1309301 TAGCAAGGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (12 bp):
CATATCAGTGGG
Found at i:1309525 original size:8 final size:7
Alignment explanation
Indices: 1309505--1309558 Score: 56
Period size: 7 Copynumber: 7.6 Consensus size: 7
1309495 CCCCATTTCC
1309505 TTCTTTT
1 TTCTTTT
1309512 TTCTTTT
1 TTCTTTT
*
1309519 TTCCTTT
1 TTCTTTT
1309526 TTCTTTCT
1 TTCTTT-T
1309534 TTCTTCTT
1 TTCTT-TT
*
1309542 TT-TTTC
1 TTCTTTT
*
1309548 TTCTTTC
1 TTCTTTT
1309555 TTCT
1 TTCT
1309559 CCCTTTCTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
6 3 0.07
7 28 0.68
8 9 0.22
9 1 0.02
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (7 bp):
TTCTTTT
Found at i:1309532 original size:11 final size:11
Alignment explanation
Indices: 1309504--1309571 Score: 70
Period size: 11 Copynumber: 6.3 Consensus size: 11
1309494 ACCCCATTTC
1309504 CTTCTTT-TTT
1 CTTCTTTCTTT
*
1309514 CTTTTTTCCTTT
1 CTTCTTT-CTTT
1309526 -TTCTTTCTTT
1 CTTCTTTCTTT
*
1309536 CTTCTTTTTTT
1 CTTCTTTCTTT
1309547 CTTCTTTC-TT
1 CTTCTTTCTTT
*
1309557 CTCCCTTTCTTT
1 CT-TCTTTCTTT
1309569 CTT
1 CTT
1309572 GGTCTGCTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
10 14 0.30
11 26 0.55
12 7 0.15
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (11 bp):
CTTCTTTCTTT
Found at i:1309554 original size:18 final size:18
Alignment explanation
Indices: 1309504--1309558 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
1309494 ACCCCATTTC
1309504 CTTC-TTTTTTCTT-TTT
1 CTTCTTTTTTTCTTCTTT
* *
1309520 -TCCTTTTTCT-TTCTTT
1 CTTCTTTTTTTCTTCTTT
1309536 CTTCTTTTTTTCTTCTTT
1 CTTCTTTTTTTCTTCTTT
1309554 CTTCT
1 CTTCT
1309559 CCCTTTCTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
15 4 0.13
16 8 0.26
17 8 0.26
18 11 0.35
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (18 bp):
CTTCTTTTTTTCTTCTTT
Found at i:1309558 original size:25 final size:24
Alignment explanation
Indices: 1309504--1309558 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
1309494 ACCCCATTTC
*
1309504 CTTCTTTTTTCTTTTTTCCTTTTT
1 CTTCTTTCTTCTTTTTTCCTTTTT
*
1309528 CTTTCTTTCTTCTTTTTTTCTTCTTT
1 C-TTCTTTCTTCTTTTTTCCTT-TTT
1309554 CTTCT
1 CTTCT
1309559 CCCTTTCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 1 0.04
25 22 0.81
26 4 0.15
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (24 bp):
CTTCTTTCTTCTTTTTTCCTTTTT
Found at i:1309565 original size:18 final size:18
Alignment explanation
Indices: 1309525--1309567 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
1309515 TTTTTTCCTT
***
1309525 TTTCTTTCTTTCTTCTTTT
1 TTTC-TTCTTTCTTCTCCC
1309544 TTTCTTCTTTCTTCTCCC
1 TTTCTTCTTTCTTCTCCC
1309562 TTTCTT
1 TTTCTT
1309568 TCTTGGTCTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTCTTCTTTCTTCTCCC
Found at i:1310219 original size:10 final size:9
Alignment explanation
Indices: 1310177--1310209 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
1310167 GTGTAGTCCT
1310177 TTTTTTGTG
1 TTTTTTGTG
1310186 TTTTTTGTG
1 TTTTTTGTG
*
1310195 TTTTTTGTA
1 TTTTTTGTG
1310204 TTTTTT
1 TTTTTT
1310210 TGTACTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.03, C:0.00, G:0.15, T:0.82
Consensus pattern (9 bp):
TTTTTTGTG
Found at i:1310564 original size:28 final size:27
Alignment explanation
Indices: 1310527--1310935 Score: 330
Period size: 28 Copynumber: 15.0 Consensus size: 27
1310517 TACCAGCTAG
** *
1310527 TGTGGGCTTTGACTTAGATGCCAATTAG
1 TGTGGGCTTTGACTTAG-TGCCAACGAA
* * *
1310555 TGTGGGCTTTAACTTAGGTGCTAGCGAA
1 TGTGGGCTTTGACTTA-GTGCCAACGAA
* *
1310583 TGTGGGCTTAGACTTATGTGCCAAAGAA
1 TGTGGGCTTTGACTTA-GTGCCAACGAA
* *
1310611 TGTGGGCTTTGACTTAGATGCCAACTAG
1 TGTGGGCTTTGACTTAG-TGCCAACGAA
***
1310639 TGTGGGCTTTGACTTATGTGCCGGTGAA
1 TGTGGGCTTTGACTTA-GTGCCAACGAA
** * *
1310667 TGTGGGCTTAAACTTATATGCCAAGGAA
1 TGTGGGCTTTGACTTA-GTGCCAACGAA
*
1310695 TGTGGGCTTTGACTTA-TGCCAACTAA
1 TGTGGGCTTTGACTTAGTGCCAACGAA
* ** *
1310721 CGTGGGCTTCAACTTATGTGCCAGCGAA
1 TGTGGGCTTTGACTTA-GTGCCAACGAA
*
1310749 TGTGGGCTTAGACTTATGTGCCAAC--A
1 TGTGGGCTTTGACTTA-GTGCCAACGAA
* *
1310775 TGTGGGCTTTGACCT-GTGCCAGC-AA
1 TGTGGGCTTTGACTTAGTGCCAACGAA
* *
1310800 GTGTGGGCTTTAACTTAGATGCCAACTAA
1 -TGTGGGCTTTGACTTAG-TGCCAACGAA
* * *
1310829 TGTGGGCTTAGACTTATGTGCCAATGAG
1 TGTGGGCTTTGACTTA-GTGCCAACGAA
*
1310857 TGTGGGCTTTGACTTA-TGCCAAGGAA
1 TGTGGGCTTTGACTTAGTGCCAACGAA
* * *
1310883 TGTGGGCTTTGACTT-GTGCTAATGAC
1 TGTGGGCTTTGACTTAGTGCCAACGAA
*
1310909 TGTGGGCTTTAACATGT-GTGCCAACGA
1 TGTGGGCTTTGAC-T-TAGTGCCAACGA
1310936 GTGTAGGCCA
Statistics
Matches: 307, Mismatches: 60, Indels: 28
0.78 0.15 0.07
Matches are distributed among these distances:
24 7 0.02
25 1 0.00
26 90 0.29
27 3 0.01
28 201 0.65
29 5 0.02
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (27 bp):
TGTGGGCTTTGACTTAGTGCCAACGAA
Found at i:1310844 original size:108 final size:105
Alignment explanation
Indices: 1310695--1310901 Score: 274
Period size: 108 Copynumber: 1.9 Consensus size: 105
1310685 TGCCAAGGAA
* *
1310695 TGTGGGCTTTGACTTATGCCAACTAACGTGGGCTTCAACTTATGTGCCAGCGAATGTGGGCTTAG
1 TGTGGGCTTTAACTTATGCCAACTAACGTGGGCTTCAACTTATGTGCCAACGAATGTGGGCTTAG
*
1310760 ACTTATGTGCCAA-CATGTGGGCTTTGACCTGTGCCAGCAAG
66 ACTTA--TGCCAAGAATGTGGGCTTTGACCTGTGCCAGCAAG
* * *
1310801 TGTGGGCTTTAACTTAGATGCCAACTAATGTGGGCTT-AGACTTATGTGCCAATGAGTGTGGGCT
1 TGTGGGCTTTAACTT--ATGCCAACTAACGTGGGCTTCA-ACTTATGTGCCAACGAATGTGGGCT
* *
1310865 TTGACTTATGCCAAGGAATGTGGGCTTTGACTTGTGC
63 TAGACTTATGCCAA-GAATGTGGGCTTTGACCTGTGC
1310902 TAATGACTGT
Statistics
Matches: 88, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
106 20 0.23
107 1 0.01
108 67 0.76
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (105 bp):
TGTGGGCTTTAACTTATGCCAACTAACGTGGGCTTCAACTTATGTGCCAACGAATGTGGGCTTAG
ACTTATGCCAAGAATGTGGGCTTTGACCTGTGCCAGCAAG
Found at i:1310931 original size:54 final size:52
Alignment explanation
Indices: 1310599--1311040 Score: 241
Period size: 54 Copynumber: 8.4 Consensus size: 52
1310589 CTTAGACTTA
* *
1310599 TGTGCCAAAGAATGTGGGCTTTGACTTAGATGCCAACT-AGTGTGGGCTTTGACTT
1 TGTGCCAACGAATGTGGGCTTTGACTT-G-TGCCAA-TGAGTGTGGGCTTTAAC-T
*** ** * * * *
1310654 ATGTGCCGGTGAATGTGGGCTTAAACTTATATGCCAAGGAATGTGGGCTTTGACT
1 -TGTGCCAACGAATGTGGGCTTTGAC-T-TGTGCCAATGAGTGTGGGCTTTAACT
* * * ** ** *
1310709 TATGCCAACTAACGTGGGCTTCAACTTATGTGCCAGCGAATGTGGGC-TTAGACTT
1 TGTGCCAACGAATGTGGGCTTTGAC-T-TGTGCCAATGAGTGTGGGCTTTA-AC-T
* ***
1310764 ATGTGCCAAC--ATGTGGGCTTTGACCTGTGCCAGCAAGTGTGGGCTTTAACT
1 -TGTGCCAACGAATGTGGGCTTTGACTTGTGCCAATGAGTGTGGGCTTTAACT
* * *
1310815 TAGATGCCAACTAATGTGGGCTTAGACTTATGTGCCAATGAGTGTGGGCTTTGACT
1 T-G-TGCCAACGAATGTGGGCTTTGAC-T-TGTGCCAATGAGTGTGGGCTTTAACT
* * * *
1310871 TATGCCAAGGAATGTGGGCTTTGACTTGTGCTAATGACTGTGGGCTTTAACAT
1 TGTGCCAACGAATGTGGGCTTTGACTTGTGCCAATGAGTGTGGGCTTTAAC-T
* *
1310924 GTGTGCCAACG-A-GT--G---T-A---G-GCCAATGAATGTGGGCTTTCACCT
1 -TGTGCCAACGAATGTGGGCTTTGACTTGTGCCAATGAGTGTGGGCTTT-AACT
* * * * *
1310966 GTGTGCTAACGAGTGTGGGCTTTGACTTGTGCCAATGAATGTGGGCTTTGAGT
1 -TGTGCCAACGAATGTGGGCTTTGACTTGTGCCAATGAGTGTGGGCTTTAACT
* *
1311019 TGTGCCAATGATTGTGGGCTTT
1 TGTGCCAACGAATGTGGGCTTT
1311041 AATTCATATG
Statistics
Matches: 306, Mismatches: 52, Indels: 60
0.73 0.12 0.14
Matches are distributed among these distances:
42 28 0.09
43 3 0.01
44 2 0.01
46 2 0.01
47 1 0.00
49 1 0.00
50 3 0.01
51 2 0.01
52 69 0.23
53 10 0.03
54 110 0.36
55 2 0.01
56 71 0.23
57 1 0.00
58 1 0.00
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.32
Consensus pattern (52 bp):
TGTGCCAACGAATGTGGGCTTTGACTTGTGCCAATGAGTGTGGGCTTTAACT
Found at i:1311008 original size:26 final size:26
Alignment explanation
Indices: 1310942--1311040 Score: 126
Period size: 26 Copynumber: 3.7 Consensus size: 26
1310932 ACGAGTGTAG
*
1310942 GCCAATGAATGTGGGCTTTCACCTGTGT
1 GCCAATGAATGTGGGCTTTGA-CT-TGT
* * *
1310970 GCTAACGAGTGTGGGCTTTGACTTGT
1 GCCAATGAATGTGGGCTTTGACTTGT
*
1310996 GCCAATGAATGTGGGCTTTGAGTTGT
1 GCCAATGAATGTGGGCTTTGACTTGT
*
1311022 GCCAATGATTGTGGGCTTT
1 GCCAATGAATGTGGGCTTT
1311041 AATTCATATG
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
26 43 0.69
27 2 0.03
28 17 0.27
ACGTcount: A:0.17, C:0.16, G:0.32, T:0.34
Consensus pattern (26 bp):
GCCAATGAATGTGGGCTTTGACTTGT
Found at i:1311053 original size:54 final size:54
Alignment explanation
Indices: 1310942--1311054 Score: 122
Period size: 54 Copynumber: 2.1 Consensus size: 54
1310932 ACGAGTGTAG
* * * *
1310942 GCCAATGAATGTGGGCTTTCACCTGTGTGCTAACGAGTGTGGGCTTTGACTTGT
1 GCCAATGAATGTGGGCTTTCACCTGTGTGCCAACGAGTGTGGGCTTTAACATAT
* * * *
1310996 GCCAATGAATGTGGGCTTTGA-GT-TGTGCCAATGATTGTGGGCTTTAATTCATAT
1 GCCAATGAATGTGGGCTTTCACCTGTGTGCCAACGAGTGTGGGCTTTAA--CATAT
1311050 GCCAA
1 GCCAA
1311055 CTAGCGTGGG
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
52 20 0.41
53 1 0.02
54 28 0.57
ACGTcount: A:0.20, C:0.17, G:0.29, T:0.34
Consensus pattern (54 bp):
GCCAATGAATGTGGGCTTTCACCTGTGTGCCAACGAGTGTGGGCTTTAACATAT
Found at i:1311053 original size:122 final size:121
Alignment explanation
Indices: 1310827--1311055 Score: 316
Period size: 122 Copynumber: 1.9 Consensus size: 121
1310817 GATGCCAACT
* * *
1310827 AATGTGGGCTTAGACTTATGTGCCAATGAGTGTGGGCTTTGACTTATGCCAAGGAATGTGGGCTT
1 AATGTGGGCTTACACCTATGTGCCAACGAGTGTGGGCTTTGACTTATGCCAAGGAATGTGGGCTT
* *
1310892 TGACTTGTGCTAATGACTGTGGGCTTTAACATGTGTGCCAACGAGTGTAGGCCAATG
66 TGACTTGTGCCAATGACTGTGGGCTTTAACA-GTATGCCAACGAGTGTAGGCCAATG
* * * * *
1310949 AATGTGGGCTTTCACCTGTGTGCTAACGAGTGTGGGCTTTGACTTGTGCCAATGAATGTGGGCTT
1 AATGTGGGCTTACACCTATGTGCCAACGAGTGTGGGCTTTGACTTATGCCAAGGAATGTGGGCTT
* *
1311014 TGAGTTGTGCCAATGATTGTGGGCTTTAATTCA-TATGCCAAC
66 TGACTTGTGCCAATGACTGTGGGCTTTAA--CAGTATGCCAAC
1311056 TAGCGTGGGC
Statistics
Matches: 93, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
122 91 0.98
124 2 0.02
ACGTcount: A:0.21, C:0.16, G:0.30, T:0.33
Consensus pattern (121 bp):
AATGTGGGCTTACACCTATGTGCCAACGAGTGTGGGCTTTGACTTATGCCAAGGAATGTGGGCTT
TGACTTGTGCCAATGACTGTGGGCTTTAACAGTATGCCAACGAGTGTAGGCCAATG
Found at i:1312238 original size:14 final size:15
Alignment explanation
Indices: 1312221--1312254 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
1312211 TTCATTTGAG
1312221 TTTTTTTTTTGTT-T
1 TTTTTTTTTTGTTCT
*
1312235 TTTTGTTTTTGTTCT
1 TTTTTTTTTTGTTCT
1312250 TTTTT
1 TTTTT
1312255 GCTCTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.00, C:0.03, G:0.09, T:0.88
Consensus pattern (15 bp):
TTTTTTTTTTGTTCT
Found at i:1312279 original size:15 final size:16
Alignment explanation
Indices: 1312251--1312280 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1312241 TTTTGTTCTT
1312251 TTTTGCTCTTTTTTTG
1 TTTTGCTCTTTTTTTG
1312267 TTTTGCT-TTTTTTT
1 TTTTGCTCTTTTTTT
1312281 AGATCTTAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.00, C:0.10, G:0.10, T:0.80
Consensus pattern (16 bp):
TTTTGCTCTTTTTTTG
Found at i:1312287 original size:27 final size:27
Alignment explanation
Indices: 1312232--1312287 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
1312222 TTTTTTTTTG
*
1312232 TTTTTTTGTTTTTGTTCTTTTTTGCTC
1 TTTTTTTGTTTTTGTTCTTTTTTGATC
1312259 TTTTTTTG-TTTTGCTT-TTTTTTAGATC
1 TTTTTTTGTTTTTG-TTCTTTTTT-GATC
1312286 TT
1 TT
1312288 AGGATGCCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.04, C:0.09, G:0.11, T:0.77
Consensus pattern (27 bp):
TTTTTTTGTTTTTGTTCTTTTTTGATC
Found at i:1316765 original size:33 final size:33
Alignment explanation
Indices: 1316728--1316794 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1316718 TTCAACGATT
1316728 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1316761 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1316794 T
1 T
1316795 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1316766 original size:13 final size:13
Alignment explanation
Indices: 1316748--1316772 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1316738 CATAAAATGT
1316748 TGTATCGATACAA
1 TGTATCGATACAA
1316761 TGTATCGATACA
1 TGTATCGATACA
1316773 TATTTTTTTG
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:1316853 original size:13 final size:13
Alignment explanation
Indices: 1316835--1316859 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1316825 ATTACTCAAA
1316835 TGTATCGATACAT
1 TGTATCGATACAT
1316848 TGTATCGATACA
1 TGTATCGATACA
1316860 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1316923 original size:51 final size:52
Alignment explanation
Indices: 1316868--1316987 Score: 208
Period size: 52 Copynumber: 2.3 Consensus size: 52
1316858 CACTGATCTT
*
1316868 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
1316919 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1316971 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
1316988 TAACTCTTCA
Statistics
Matches: 66, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
51 19 0.29
52 44 0.67
53 3 0.05
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:1326257 original size:13 final size:13
Alignment explanation
Indices: 1326239--1326264 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1326229 CAATTTTTTG
1326239 TGTATCGATACAT
1 TGTATCGATACAT
1326252 TGTATCGATACAT
1 TGTATCGATACAT
1326265 ACTTGCTGTA
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:1328320 original size:51 final size:51
Alignment explanation
Indices: 1328234--1328363 Score: 170
Period size: 51 Copynumber: 2.5 Consensus size: 51
1328224 ATTTAAACTA
* * * * * *
1328234 GATATATCGATAAAATGTATTGATACTTCTGGGTAAAAAGATAGAATATATC
1 GATATATTGA-AAAATGTATCGATACATCTAGGTAAAAAGACAAAATATATC
* *
1328286 GATATATTGAAAAAAGTATCGATACATCTAGGTAAAAAGACAAAATGTATC
1 GATATATTGAAAAATGTATCGATACATCTAGGTAAAAAGACAAAATATATC
*
1328337 GATACATTGAAAAATGTATCGATACAT
1 GATATATTGAAAAATGTATCGATACAT
1328364 TCATACTTGT
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
51 59 0.87
52 9 0.13
ACGTcount: A:0.45, C:0.09, G:0.16, T:0.29
Consensus pattern (51 bp):
GATATATTGAAAAATGTATCGATACATCTAGGTAAAAAGACAAAATATATC
Found at i:1328352 original size:20 final size:20
Alignment explanation
Indices: 1328327--1328383 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
1328317 GTAAAAAGAC
*
1328327 AAAATGTATCGATACATTGA
1 AAAATGTATCGATACATTCA
1328347 AAAATGTATCGATACATTCA
1 AAAATGTATCGATACATTCA
* **
1328367 TACTTGTATCGATACAT
1 AAAATGTATCGATACAT
1328384 CTAGGTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.33
Consensus pattern (20 bp):
AAAATGTATCGATACATTCA
Found at i:1328749 original size:20 final size:20
Alignment explanation
Indices: 1328724--1328778 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
1328714 AAAAAGACAG
*
1328724 AATGTATCAATACATTGAAA
1 AATGTATCAATACATTCAAA
* *
1328744 AATGTATCGATACATTCATA
1 AATGTATCAATACATTCAAA
*
1328764 CATGTATCAATACAT
1 AATGTATCAATACAT
1328779 CGATACATCT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.33
Consensus pattern (20 bp):
AATGTATCAATACATTCAAA
Found at i:1328784 original size:20 final size:20
Alignment explanation
Indices: 1328725--1328786 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
1328715 AAAAGACAGA
* * *
1328725 ATGTATCAATACATTGAAAA
1 ATGTATCAATACATCGATAC
*
1328745 ATGTATCGATACATTC-ATAC
1 ATGTATCAATACA-TCGATAC
1328765 ATGTATCAATACATCGATAC
1 ATGTATCAATACATCGATAC
1328785 AT
1 AT
1328787 CTGGGTAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 2 0.06
20 32 0.91
21 1 0.03
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (20 bp):
ATGTATCAATACATCGATAC
Found at i:1328817 original size:79 final size:79
Alignment explanation
Indices: 1328702--1328849 Score: 217
Period size: 79 Copynumber: 1.9 Consensus size: 79
1328692 AAATGTATTA
* *
1328702 ATACAACTGAGTAAAAAGACAGAATGTATCAATACATTGAAAAATGTATCGATACATTCATACAT
1 ATACAACTGAGTAAAAAGACAGAACGTATCAATACATTAAAAAATGTATCGATACATTCATACAT
1328767 GTATCAATACATCG
66 GTATCAATACATCG
* * * * *
1328781 ATACATCTGGGTAAAAAGACAGAACGT-GCTGATACATTAAAAAATGTATCGATACATTCATACC
1 ATACAACTGAGTAAAAAGACAGAACGTATC-AATACATTAAAAAATGTATCGATACATTCATACA
1328845 TGTAT
65 TGTAT
1328850 TGATATATCT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
78 1 0.02
79 60 0.98
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (79 bp):
ATACAACTGAGTAAAAAGACAGAACGTATCAATACATTAAAAAATGTATCGATACATTCATACAT
GTATCAATACATCG
Found at i:1332671 original size:13 final size:13
Alignment explanation
Indices: 1332653--1332678 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1332643 AAATTTTTTG
1332653 TGTATCGATACAT
1 TGTATCGATACAT
1332666 TGTATCGATACAT
1 TGTATCGATACAT
1332679 ATTTTGTGTA
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:1332689 original size:32 final size:33
Alignment explanation
Indices: 1332632--1332696 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
1332622 TACAAGCCAA
*
1332632 TGTATCGATACAAATTTTTTGTGTATCGATACAT
1 TGTATCGATAC-AATATTTTGTGTATCGATACAT
1332666 TGTATCGATAC-ATATTTTGTGTATCGATACA
1 TGTATCGATACAATATTTTGTGTATCGATACA
1332697 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 19 0.63
34 11 0.37
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.43
Consensus pattern (33 bp):
TGTATCGATACAATATTTTGTGTATCGATACAT
Found at i:1334679 original size:21 final size:20
Alignment explanation
Indices: 1334650--1334692 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
1334640 GGCTAGTATG
*
1334650 GGGACTGCCCGGTTACGACCT
1 GGGACTG-CCGGTCACGACCT
* *
1334671 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCACGACCT
1334691 GG
1 GG
1334693 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.12, C:0.30, G:0.42, T:0.16
Consensus pattern (20 bp):
GGGACTGCCGGTCACGACCT
Found at i:1335151 original size:13 final size:13
Alignment explanation
Indices: 1335133--1335168 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
1335123 ATAATCCCCC
1335133 TGTATCGATACAG
1 TGTATCGATACAG
*
1335146 TGTATCGATACAT
1 TGTATCGATACAG
1335159 TGTATCGATA
1 TGTATCGATA
1335169 TAAAGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1337261 original size:15 final size:15
Alignment explanation
Indices: 1337236--1337271 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
1337226 CATCAATTTC
*
1337236 TTTTGGAGCTTCTTCA
1 TTTT-GAGCTTCCTCA
1337252 TTTTGAGCTTCCTCA
1 TTTTGAGCTTCCTCA
1337267 TTTTG
1 TTTTG
1337272 GACATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.11, C:0.19, G:0.17, T:0.53
Consensus pattern (15 bp):
TTTTGAGCTTCCTCA
Found at i:1339102 original size:21 final size:21
Alignment explanation
Indices: 1339073--1339117 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1339063 AAGTTTTTAT
*
1339073 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1339093 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1339115 TTT
1 TTT
1339118 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1341859 original size:13 final size:13
Alignment explanation
Indices: 1341841--1341866 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1341831 AATTTTTTTG
1341841 TGTATCGATACAT
1 TGTATCGATACAT
1341854 TGTATCGATACAT
1 TGTATCGATACAT
1341867 ATTTTGTGTA
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:1341877 original size:32 final size:34
Alignment explanation
Indices: 1341820--1341884 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 34
1341810 TACAAGCCAA
*
1341820 TGTATCGATACAATTTTTTTGTGTATCGATACAT
1 TGTATCGATACAATTATTTTGTGTATCGATACAT
1341854 TGTATCGATAC-A-TATTTTGTGTATCGATACA
1 TGTATCGATACAATTATTTTGTGTATCGATACA
1341885 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 18 0.60
33 1 0.03
34 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (34 bp):
TGTATCGATACAATTATTTTGTGTATCGATACAT
Found at i:1341989 original size:20 final size:20
Alignment explanation
Indices: 1341938--1341991 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
1341928 ATCTTTTTTA
*
1341938 TGTATCGATACATTGCAACG
1 TGTATCGATACTTTGCAACG
*
1341958 TGTATCGATACTTTG-AATTG
1 TGTATCGATACTTTGCAA-CG
1341978 TGTATCGATACTTT
1 TGTATCGATACTTT
1341992 TAAGGGTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 2 0.06
20 29 0.94
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.41
Consensus pattern (20 bp):
TGTATCGATACTTTGCAACG
Found at i:1344338 original size:32 final size:32
Alignment explanation
Indices: 1344169--1344344 Score: 133
Period size: 32 Copynumber: 5.5 Consensus size: 32
1344159 AGCATTCTAT
* * *** * *
1344169 TCTTTAAGGATTGAGGTAGGTAGATGTCCTGT
1 TCTTTGAGGACTGAGGTAGGTAGGCATCTTGC
* *
1344201 TCTTTCAGGACTGAGGTTGGTAGGCATCTTGC
1 TCTTTGAGGACTGAGGTAGGTAGGCATCTTGC
* * * * * *
1344233 TCTTTGAGGTCTAAGGTAGGTAGACGTCCTGT
1 TCTTTGAGGACTGAGGTAGGTAGGCATCTTGC
*
1344265 TCTTTGAGGACTAAGGTAGGTAGGCATCTTGC
1 TCTTTGAGGACTGAGGTAGGTAGGCATCTTGC
* *
1344297 T-TTTGGAGGACTGAGGTTGGTAAGTGC-T-TTAC
1 TCTTT-GAGGACTGAGGTAGGT-AG-GCATCTTGC
*
1344329 TCTTTGAGGATTGAGG
1 TCTTTGAGGACTGAGG
1344345 ATGCTAAGCA
Statistics
Matches: 115, Mismatches: 25, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
31 3 0.03
32 104 0.90
33 6 0.05
34 2 0.02
ACGTcount: A:0.19, C:0.13, G:0.32, T:0.35
Consensus pattern (32 bp):
TCTTTGAGGACTGAGGTAGGTAGGCATCTTGC
Found at i:1344338 original size:64 final size:64
Alignment explanation
Indices: 1344182--1344318 Score: 195
Period size: 64 Copynumber: 2.1 Consensus size: 64
1344172 TTAAGGATTG
* * * * *
1344182 AGGTAGGTAGATGTCCTGTTCTTTCAGGACTGAGGTTGGTAGGCATCTTGCTCTTTGAGGTCTA
1 AGGTAGGTAGACGTCCTGTTCTTTGAGGACTAAGGTAGGTAGGCATCTTGCTCTTTGAGGACTA
*
1344246 AGGTAGGTAGACGTCCTGTTCTTTGAGGACTAAGGTAGGTAGGCATCTTGCT-TTTGGAGGACTG
1 AGGTAGGTAGACGTCCTGTTCTTTGAGGACTAAGGTAGGTAGGCATCTTGCTCTTT-GAGGACTA
*
1344310 AGGTTGGTA
1 AGGTAGGTA
1344319 AGTGCTTTAC
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
63 3 0.05
64 62 0.95
ACGTcount: A:0.19, C:0.14, G:0.34, T:0.34
Consensus pattern (64 bp):
AGGTAGGTAGACGTCCTGTTCTTTGAGGACTAAGGTAGGTAGGCATCTTGCTCTTTGAGGACTA
Found at i:1344482 original size:35 final size:34
Alignment explanation
Indices: 1344441--1344516 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 34
1344431 TAAGGACTGA
*
1344441 AAAAAAGGTATCTT-GCTCTTTG-AGAATTAAAAAAG
1 AAAAAAGGTATCTTAG-TCTTCGAAG-ATT-AAAAAG
*
1344476 AAAAAAGGTGTCTTAGTCTTCGAAGATTAAAAAG
1 AAAAAAGGTATCTTAGTCTTCGAAGATTAAAAAG
1344510 AAAAAAG
1 AAAAAAG
1344517 TGTCCTACGT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
34 13 0.35
35 21 0.57
36 3 0.08
ACGTcount: A:0.49, C:0.08, G:0.18, T:0.25
Consensus pattern (34 bp):
AAAAAAGGTATCTTAGTCTTCGAAGATTAAAAAG
Found at i:1344541 original size:33 final size:33
Alignment explanation
Indices: 1344468--1344549 Score: 96
Period size: 33 Copynumber: 2.5 Consensus size: 33
1344458 CTTTGAGAAT
*
1344468 TAAAAAAGAAAAAAGGTGTCTTAGTCTTCGAAGA
1 TAAAAAAGAAAAAA-GTGTCCTAGTCTTCGAAGA
* *
1344502 TTAAAAAGAAAAAAGTGTCCTACGT-TT-TAAGA
1 TAAAAAAGAAAAAAGTGTCCTA-GTCTTCGAAGA
1344534 CTAAAAAAGAAAAAAG
1 -TAAAAAAGAAAAAAG
1344550 ACATCTTACT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
32 4 0.10
33 23 0.55
34 15 0.36
ACGTcount: A:0.52, C:0.09, G:0.17, T:0.22
Consensus pattern (33 bp):
TAAAAAAGAAAAAAGTGTCCTAGTCTTCGAAGA
Found at i:1348136 original size:20 final size:20
Alignment explanation
Indices: 1348111--1348165 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
1348101 CTGCCAAGGA
1348111 AATGTATCGATACATT-ATTC
1 AATGTATCGATACATTGA-TC
*
1348131 AATGTATTGATACATTGATC
1 AATGTATCGATACATTGATC
**
1348151 TTTGTATCGATACAT
1 AATGTATCGATACAT
1348166 CTGGGAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.42
Consensus pattern (20 bp):
AATGTATCGATACATTGATC
Found at i:1359409 original size:84 final size:84
Alignment explanation
Indices: 1359236--1359396 Score: 202
Period size: 84 Copynumber: 1.9 Consensus size: 84
1359226 ACTCAAAGAA
* * *
1359236 GAAAATAAATCAATAAGTGTAGAGAATGATATTCTTGAAAAGAAATTAAGTGAATTAGAGAAGAA
1 GAAAATAAATCAATAAGTGTAGAAAATGATATTCTTGAAAAGAAAATAAATGAATTAGAGAAGAA
*
1359301 TATGAAAGAGTTACAAAAT
66 TAAGAAAGAGTTACAAAAT
* * * *
1359320 GAAAATAAATCAATGAGTTTAGAAAAT-A-ATTCTTTTAAAAGGAAAATAAATGAATTAGAGGAG
1 GAAAATAAATCAATAAGTGTAGAAAATGATATTC-TTGAAAA-GAAAATAAATGAATTAGAGAAG
1359383 AA-AAGAAATGAGTT
64 AATAAGAAA-GAGTT
1359397 GCAAGTGGAA
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
82 4 0.06
83 12 0.18
84 50 0.76
ACGTcount: A:0.53, C:0.03, G:0.19, T:0.25
Consensus pattern (84 bp):
GAAAATAAATCAATAAGTGTAGAAAATGATATTCTTGAAAAGAAAATAAATGAATTAGAGAAGAA
TAAGAAAGAGTTACAAAAT
Found at i:1361531 original size:49 final size:49
Alignment explanation
Indices: 1361469--1362234 Score: 1022
Period size: 49 Copynumber: 16.1 Consensus size: 49
1361459 AACAGAACAA
*
1361469 AAAGGTAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
1361518 AAAGATAAAGGTGCCTATATGCTGATTCAAGGCCAGCTATATTGGAC-T
1 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
1361566 -----TAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT
1 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
1361610 AAAGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T
1 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
1361658 -----TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* * * *
1361702 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGAC-T
1 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
*
1361750 -----TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* * * *
1361794 AAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAACTACATTGGACTT
1 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
*
1361843 AAAGGTAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
1361892 AAAGATAAAGGTGCCCATATGCTGATTCAAGGCCAGCTATATTGGAC-T
1 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
1361940 -----TAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT
1 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
*
1361984 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* * * * *
1362033 AAAGATGAAGATGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTT
1 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
*
1362082 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* * * *
1362131 AAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTT
1 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
1362180 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT
1 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
1362229 AGAAGA
1 A-AAGA
1362235 GTTGCCACCG
Statistics
Matches: 628, Mismatches: 64, Indels: 49
0.85 0.09 0.07
Matches are distributed among these distances:
43 152 0.24
44 4 0.01
48 4 0.01
49 464 0.74
50 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
Found at i:1361602 original size:92 final size:92
Alignment explanation
Indices: 1361474--1362229 Score: 1152
Period size: 92 Copynumber: 8.0 Consensus size: 92
1361464 AACAAAAAGG
* * *
1361474 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCTATATG
1 TAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATG
1361539 CTGATTCAAGGCCAGCTATATTGGACT
66 CTGATTCAAGGCCAGCTATATTGGACT
*
1361566 TAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAAAAAGGTGCCAATATG
1 TAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATG
*
1361631 CTGATTCAAGGCCAGCGATATTGGACT
66 CTGATTCAAGGCCAGCTATATTGGACT
* * * *
1361658 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAATATG
1 TAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATG
*
1361723 CTGATTCAAGGCCAGCAATATTGGACT
66 CTGATTCAAGGCCAGCTATATTGGACT
* * *
1361750 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTG
1 TAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATG
* * *
1361815 CTGAGTCAAGGCCAACTACATTGGACTT
66 CTGATTCAAGGCCAGCTATATTGGAC-T
* * *
1361843 AAAGGTAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCC
1 -----TAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCA
1361908 ATATGCTGATTCAAGGCCAGCTATATTGGACT
61 ATATGCTGATTCAAGGCCAGCTATATTGGACT
1361940 TAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATG
1 TAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATG
1362005 CTGATTCAAGGCCAGCTATATTGGACT
66 CTGATTCAAGGCCAGCTATATTGGACT
*
1362032 TAAAGATGAAGATGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGCC
1 T-AA-A-G--G-TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCC
1362097 AATATGCTGATTCAAGGCCAGCTATATTGGACT
60 AATATGCTGATTCAAGGCCAGCTATATTGGACT
*
1362130 TAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGCC
1 T----A--AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCC
*
1362195 AATATGCTGATTCAAGGCCAGCTATATTGGGCT
60 AATATGCTGATTCAAGGCCAGCTATATTGGACT
1362228 TA
1 TA
1362230 GAAGAGTTGC
Statistics
Matches: 616, Mismatches: 31, Indels: 32
0.91 0.05 0.05
Matches are distributed among these distances:
92 347 0.56
93 3 0.00
94 2 0.00
95 1 0.00
97 2 0.00
98 256 0.42
99 1 0.00
101 2 0.00
102 1 0.00
103 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (92 bp):
TAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATG
CTGATTCAAGGCCAGCTATATTGGACT
Found at i:1361725 original size:141 final size:141
Alignment explanation
Indices: 1361469--1362229 Score: 970
Period size: 141 Copynumber: 5.4 Consensus size: 141
1361459 AACAGAACAA
* *
1361469 AAAGGTAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCT
1 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC-T-----TAAAGGTGCCA
* * *
1361534 ATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATGTGCTGAGTCAAGG
60 ATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGG
1361593 CCAGCTACATTGGACTT
125 CCAGCTACATTGGACTT
* * *
1361610 AAAGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGC
1 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATGTGC
* *
1361675 TGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCA
66 TGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCT
*
1361740 ATATTGGAC-T
131 ACATTGGACTT
*
1361750 -----TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
1 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT----A--AAGGTGCCA
* * * * *
1361810 ATGTGCTGAGTCAAGGCCAACTACATTGGACTTAAAGGTAAAGGTGCCAATATGCTGATTCAAGG
60 ATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGG
1361875 CCAGCTACATTGGACTT
125 CCAGCTACATTGGACTT
* *
1361892 AAAGATAAAGGTGCCCATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGC
1 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATGTGC
* * *
1361957 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCT
66 TGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCT
*
1362022 ATATTGGACTT
131 ACATTGGACTT
* * * * *
1362033 AAAGATGAAGATGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCA
1 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC-T-----TAAAGGTGCCA
* * *
1362098 ATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGG
60 ATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGG
*
1362163 CCAGCTACATTGGTCTT
125 CCAGCTACATTGGACTT
* *
1362180 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTA
1362230 GAAGAGTTGC
Statistics
Matches: 546, Mismatches: 50, Indels: 48
0.85 0.08 0.07
Matches are distributed among these distances:
135 82 0.15
139 2 0.00
140 2 0.00
141 289 0.53
142 2 0.00
143 1 0.00
146 1 0.00
147 167 0.31
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (141 bp):
AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATGTGC
TGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCT
ACATTGGACTT
Found at i:1362479 original size:27 final size:27
Alignment explanation
Indices: 1362441--1362595 Score: 121
Period size: 27 Copynumber: 5.2 Consensus size: 27
1362431 GCTTTAAAGG
* * *
1362441 AAAAGAGTGCCACGGAGTCGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTT
1362468 AAAAGGGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTT
1362495 AGAAGGAAAAGAAGGTGCCACGGAGTTGTGGGCTTT
1 ------AAAAG--GGTGCCACGGAGTTGTGGGC-TT
* * *
1362531 AAAGGAAAAGAGTGCCACGGAGTCGTGGACTT
1 -----AAAAGGGTGCCACGGAGTTGTGGGCTT
1362563 AAAAGGGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTT
*
1362590 AGAAGG
1 AAAAGG
1362596 AAAAGAAGGT
Statistics
Matches: 108, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
27 53 0.49
32 2 0.02
33 22 0.20
35 29 0.27
36 2 0.02
ACGTcount: A:0.29, C:0.14, G:0.38, T:0.19
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTGGGCTT
Found at i:1362582 original size:60 final size:63
Alignment explanation
Indices: 1362508--1362629 Score: 189
Period size: 60 Copynumber: 2.0 Consensus size: 63
1362498 AGGAAAAGAA
1362508 GGTGCCACGGAGTTGTGGGCTTTA-AAGGAAAAG-A-GTGCCACGGAGTCGTGGAC-TTAAAAG
1 GGTGCCACGGAGTTGTGGGC-TTAGAAGGAAAAGAAGGTGCCACGGAGTCGTGGACTTTAAAAG
* *
1362568 GGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAA
1 GGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAGAAGGTGCCACGGAGTCGTGGACTTTAAAA
1362630 AGGGAAAAAG
Statistics
Matches: 56, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
59 3 0.05
60 29 0.52
61 1 0.02
62 17 0.30
63 6 0.11
ACGTcount: A:0.28, C:0.14, G:0.38, T:0.20
Consensus pattern (63 bp):
GGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAGAAGGTGCCACGGAGTCGTGGACTTTAAAAG
Found at i:1362654 original size:37 final size:35
Alignment explanation
Indices: 1362563--1363553 Score: 1240
Period size: 37 Copynumber: 27.8 Consensus size: 35
1362553 TCGTGGACTT
* *
1362563 AAAAGGGTGCCACGGAGTTGTGGGC-TT-AGAAGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGG
1362596 AAAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGG
1 -AAA-AAGGTGCCACGGAGTTGTGGGCTTTAAAAA-GG
1362634 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA-G
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGG
*
1362669 AAAAAGGTGCCATGGAGTTGTGGGCTTTAAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAA-GG
1362705 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA-G
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGG
*
1362740 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAAGG
*
1362776 AAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAA-G
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGG
* *
1362811 AAAAAGTATGCCACAGAGTTGTGGGCTTTAAAAAGGG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAA-GG
1362848 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA-G
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGG
*
1362883 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAAGG
*
1362919 AAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAA-G
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGG
*
1362954 AAAAAGTGTGCCACAGAGTTGTGGGCTTT-AAAA-G
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGG
*
1362988 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAAGG
*
1363024 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAGAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTT-AA-AAAGG
*
1363062 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT-AA-AAAGG
* *
1363099 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGA-G
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGG
* *
1363133 AAAAAGGTGCCACGGAGTGGTGGGCTTTGAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAAGG
* *
1363169 AAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAGAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTT-AA-AAAGG
*
1363207 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT-AA-AAAGG
* *
1363244 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGA-G
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGG
* **
1363278 AAAAAGGTGCCACGGAGTGGTGGGCTTTGAAAAGAAA
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAA-AGG
*
1363315 AAAAATGTGCCACGGAGTTGTGGGCTTTGAAGAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT-AA-AAAGG
1363352 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT-AA-AAAGG
* * *
1363389 AAAAA-GAGCCACGGAGTGGTGGGCTTTCAAAA-G
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGG
* * *
1363422 AAAAAGATGCCACGGAGTGGTGGGCTTTCAAAA-G
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGG
1363456 -AAAAGGTGCCACGGAGTTGTGGGCTTTAAAAA-G
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGG
* *
1363489 AAAAAGGTGCCACGGAGTGGTGGGCTTTGAAGAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT-AA-AAAGG
* *
1363526 AAAAAGATGCCACGGAGTGGTGGGCTTT
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT
1363554 GAAGAAAAGG
Statistics
Matches: 869, Mismatches: 54, Indels: 65
0.88 0.05 0.07
Matches are distributed among these distances:
33 57 0.07
34 195 0.22
35 126 0.14
36 74 0.09
37 395 0.45
38 22 0.03
ACGTcount: A:0.34, C:0.11, G:0.35, T:0.19
Consensus pattern (35 bp):
AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGG
Found at i:1362698 original size:71 final size:71
Alignment explanation
Indices: 1362563--1363553 Score: 1270
Period size: 71 Copynumber: 13.9 Consensus size: 71
1362553 TCGTGGACTT
* * * *
1362563 AAAAGGGTGCCACGGAGTTGTGGGCTTAGAAGGAA-AAGAAGGTGCCACGGAGTTGTGGGCTTTA
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAA-AAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTA
1362627 AAAAGGG
65 AAAAGGG
*
1362634 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAAGAAAAAGGTGCCATGGAGTTGTGGGCTTTA
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTA
1362698 AAAAGGG
65 AAAAGGG
*
1362705 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTA
1362769 AAAAGGG
65 AAAAGGG
* * *
1362776 AAAAAGAGTGCCACAGAGTTGTGGGCTTT-AAAAAGAAAAAGTATGCCACAGAGTTGTGGGCTTT
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAAGAAAAAG-GTGCCACGGAGTTGTGGGCTTT
1362840 AAAAAGGG
64 AAAAAGGG
*
1362848 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTA
1362912 AAAAGGG
65 AAAAGGG
* *
1362919 AAAAAGAGTGCCACAGAGTTGTGGGCTTT-AAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTT
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAAGAAAAAG-GTGCCACGGAGTTGTGGGCTTT
1362983 -AAAA--G
64 AAAAAGGG
*
1362988 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-AGAAAAAG-GTGCCACGGAGTTGTGGGCTTT
**
1363053 AAAGAAAAG
64 AAA-AAGGG
1363062 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTG-A-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
* *
1363127 --GAAGAG
64 AAAAAGGG
* * *
1363133 AAAAAGGTGCCACGGAGTGGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-AGAAAAAG-GTGCCACGGAGTTGTGGGCTTT
*
1363198 GAAGAAA-AG
64 -AA-AAAGGG
1363207 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTG-A-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
* *
1363272 --GAAGAG
64 AAAAAGGG
* * *
1363278 AAAAAGGTGCCACGGAGTGGTGGGCTTTGAAAAGAAAAAAAATGTGCCACGGAGTTGTGGGCTTT
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTG-AAA-AAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
1363343 GAAGAAA-GG
64 -AA-AAAGGG
* *
1363352 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAGGAAAAA-GAGCCACGGAGTGGTGGGCTTT
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAA-AAA-GAAAAAGGTGCCACGGAGTTGTGGGCTTT
*
1363416 CAAAA--G
64 AAAAAGGG
* * *
1363422 AAAAAGATGCCACGGAGTGGTGGGCTTT-CAAAAG-AAAAGGTGCCACGGAGTTGTGGGCTTTAA
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAA
1363485 AAA--G
66 AAAGGG
* * *
1363489 AAAAAGGTGCCACGGAGTGGTGGGCTTTGAAGAAAAGAAAAAGATGCCACGGAGTGGTGGGCTTT
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTG-A-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
1363554 GAAGAAAAGG
Statistics
Matches: 835, Mismatches: 52, Indels: 66
0.88 0.05 0.07
Matches are distributed among these distances:
66 4 0.00
67 53 0.06
68 24 0.03
69 15 0.02
70 74 0.09
71 365 0.44
72 112 0.13
73 24 0.03
74 138 0.17
75 20 0.02
76 6 0.01
ACGTcount: A:0.34, C:0.11, G:0.35, T:0.19
Consensus pattern (71 bp):
AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAA
AAAGGG
Found at i:1362787 original size:108 final size:105
Alignment explanation
Indices: 1362563--1363553 Score: 1260
Period size: 108 Copynumber: 9.3 Consensus size: 105
1362553 TCGTGGACTT
* * *
1362563 AAAAGGGTGCCACGGAGTTGTGGGC-TT-AGAAGGAAAAGAAGGTGCCACGGAGTTGTGGGCTTT
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAA-AAGGTGCCACGGAGTTGTGGGCTTT
1362626 AAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAAG
65 AAAAA--GAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAAG
*
1362669 AAAAAGGTGCCATGGAGTTGTGGGCTTTAAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAAAG-GTGCCACGGAGTTGTGGGCTTT
*
1362734 AAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGG
65 AAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-AG
* * *
1362776 AAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAA--GAAAAAGTATGCCACAGAGTTGTGGGCTT
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAAAG-GTGCCACGGAGTTGTGGGCTT
1362839 TAAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAAG
64 TAAAAA--GAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAAG
* *
1362883 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAAAG-GTGCCACGGAGTTGTGGGCTTT
*
1362948 AAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTT--AAAAG
65 AAAAAGAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAAG
*
1362988 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAAAG-GTGCCACGGAGTTGTGGGCTTT
1363053 AAAGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAAG
65 --A-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTG-A-AAAAG
* * *
1363099 AAAAAGGTGCCACGGAGTTGTGGGCTTT--GAAGAGAAAAAGGTGCCACGGAGTGGTGGGCTTTG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAAAGGTGCCACGGAGTTGTGGGCTTT-
* *
1363162 AAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAGAAAAG
65 AAAA-AGAAAAAG-GTGCCACGGAGTTGTGGGCTTTG-A-AAAAG
*
1363207 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAA-AGAAAAAGGTGCCACGGAGTTGTGGGCTT
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT-AA-AAAGGGAAAAAGGTGCCACGGAGTTGTGGGCTT
* * * *
1363271 TGAAGAGAAAAAGGTGCCACGGAGTGGTGGGCTTTGAAAAGAAA
64 TAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTG-AAA-AAG
*
1363315 AAAAATGTGCCACGGAGTTGTGGGCTTTGAAGAAA-GGAAAAAGGTGCCACGGAGTTGTGGGCTT
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT-AA-AAAGGGAAAAAGGTGCCACGGAGTTGTGGGCTT
* * *
1363379 TGAAGAAAGGAAAAA-GAGCCACGGAGTGGTGGGCTTT-CAAAAG
64 T-AA-AAA-GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAAG
* * *
1363422 AAAAAGATGCCACGGAGTGGTGGGCTTTCAAAA--G-AAAAGGTGCCACGGAGTTGTGGGCTTTA
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAAAGGTGCCACGGAGTTGTGGGCTTTA
*
1363484 AAAAGAAAAAGGTGCCACGGAGTGGTGGGCTTTGAAGAAAAG
66 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTG-A-AAAAG
* *
1363526 AAAAAGATGCCACGGAGTGGTGGGCTTT
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT
1363554 GAAGAAAAGG
Statistics
Matches: 807, Mismatches: 46, Indels: 66
0.88 0.05 0.07
Matches are distributed among these distances:
100 6 0.01
101 24 0.03
102 2 0.00
103 27 0.03
104 34 0.04
105 94 0.12
106 123 0.15
107 78 0.10
108 284 0.35
109 40 0.05
110 25 0.03
111 68 0.08
112 2 0.00
ACGTcount: A:0.34, C:0.11, G:0.35, T:0.19
Consensus pattern (105 bp):
AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAAAGGTGCCACGGAGTTGTGGGCTTTA
AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAAG
Found at i:1371985 original size:52 final size:52
Alignment explanation
Indices: 1371852--1371992 Score: 230
Period size: 52 Copynumber: 2.7 Consensus size: 52
1371842 TGAAAAGTTA
1371852 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
1371904 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
**
1371956 CTGCATGTATCGATACA-AAAATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTTAAT-AGTGTATCGATACA
1371993 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:1371999 original size:13 final size:13
Alignment explanation
Indices: 1371981--1372005 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1371971 CAAAAATCAG
1371981 TGTATCGATACAA
1 TGTATCGATACAA
1371994 TGTATCGATACA
1 TGTATCGATACA
1372006 TGTGAGTAAT
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:1372089 original size:13 final size:13
Alignment explanation
Indices: 1372071--1372095 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1372061 CAAAAAAATA
1372071 TGTATCGATACAT
1 TGTATCGATACAT
1372084 TGTATCGATACA
1 TGTATCGATACA
1372096 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1372091 original size:33 final size:33
Alignment explanation
Indices: 1372049--1372115 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1372039 AGTAGCTTAA
1372049 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1372082 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1372115 A
1 A
1372116 AATCATTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1372194 original size:21 final size:21
Alignment explanation
Indices: 1372153--1372194 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1372143 GTTGGGACCT
*
1372153 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
1372174 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
1372195 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:1373481 original size:13 final size:13
Alignment explanation
Indices: 1373463--1373487 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1373453 TTTTCCAGAT
1373463 TGTATCGATACAA
1 TGTATCGATACAA
1373476 TGTATCGATACA
1 TGTATCGATACA
1373488 TTACTTCAGT
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:1374399 original size:46 final size:46
Alignment explanation
Indices: 1374342--1374444 Score: 188
Period size: 46 Copynumber: 2.2 Consensus size: 46
1374332 TTATAACAAA
* *
1374342 AAGGGGAAGAGATTATTGTTTATTGGTTTAAGGGTGACAACGTATT
1 AAGGGGGAGAGATTATTGCTTATTGGTTTAAGGGTGACAACGTATT
1374388 AAGGGGGAGAGATTATTGCTTATTGGTTTAAGGGTGACAACGTATT
1 AAGGGGGAGAGATTATTGCTTATTGGTTTAAGGGTGACAACGTATT
1374434 AAGGGGGAGAG
1 AAGGGGGAGAG
1374445 TTTGTATAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 55 1.00
ACGTcount: A:0.30, C:0.05, G:0.35, T:0.30
Consensus pattern (46 bp):
AAGGGGGAGAGATTATTGCTTATTGGTTTAAGGGTGACAACGTATT
Found at i:1380799 original size:52 final size:52
Alignment explanation
Indices: 1380721--1380851 Score: 208
Period size: 52 Copynumber: 2.5 Consensus size: 52
1380711 TCCGAAATAT
* * * *
1380721 GAAAAGTTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTAATAATGTATCAATACATCTGG
*
1380773 GAAAATTTGCCTGCATGTATCGATACATTTTATAATGTATCAATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTAATAATGTATCAATACATCTGG
*
1380825 GCAAATTTGCCTGCATGTATCGATACA
1 GAAAATTTGCCTGCATGTATCGATACA
1380852 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.34
Consensus pattern (52 bp):
GAAAATTTGCCTGCATGTATCGATACATTTAATAATGTATCAATACATCTGG
Found at i:1380864 original size:52 final size:51
Alignment explanation
Indices: 1380721--1380871 Score: 196
Period size: 52 Copynumber: 2.9 Consensus size: 51
1380711 TCCGAAATAT
* *
1380721 GAAAAGTTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGG
* * *
1380773 GAAAATTTGCCTGCATGTATCGATACATTTTATAATGTATCAATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGG
* *
1380825 GCAAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 GAAAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1380872 ATGGATCGAT
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 2 0.02
52 85 0.98
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (51 bp):
GAAAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGG
Found at i:1390129 original size:182 final size:182
Alignment explanation
Indices: 1389806--1390174 Score: 575
Period size: 182 Copynumber: 2.0 Consensus size: 182
1389796 TCCATAGACA
*
1389806 CTTGAGTGAAATATGAAATAGAACTATTGGAGTAGGTGATGTTTAGTGAACTTGTTCTCACAACA
1 CTTGAGTGAAATATGAAATAGAACTATTGGACTAGGTGATGTTTAGTGAACTTGTTCTCACAACA
* * *
1389871 AGCACCTATATGTTATCCTCAAGTATCACAATACTTCAATCTCATGAGATCAATTGCATGAATCA
66 AACACCTATATGTTAACCTCAAGTATCACAATACTTCAATCTCATGAGATCAATTGCATGAACCA
* *
1389936 CATGCATTAAGGCTTATCATATGCTGGTCTTTATGCATTATCAATGCTCGAT
131 CATGCATTAAGGCTTATCATATGCTAGTCATTATGCATTATCAATGCTCGAT
* *
1389988 CTTGAGTGAAATACT-AAAT-GAAACTCTTGGACTAGGTTATGTTTAGTGAACTTGTTCTCACAA
1 CTTGAGTGAAATA-TGAAATAG-AACTATTGGACTAGGTGATGTTTAGTGAACTTGTTCTCACAA
*
1390051 CAAACACCTATATATGTTAACCTCAAGTATCA-AATACTTCAATCTCATGAGATCAATTGCGTGA
64 CAAACACC--TATATGTTAACCTCAAGTATCACAATACTTCAATCTCATGAGATCAATTGCATGA
* *
1390115 ACCACATG-ATTAAGGCTTATCATATGCTAGTCATTGTGCATTATCAATGCTCGGT
127 ACCACATGCATTAAGGCTTATCATATGCTAGTCATTATGCATTATCAATGCTCGAT
1390170 CTTGA
1 CTTGA
1390175 CAATATGATG
Statistics
Matches: 172, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
181 1 0.01
182 111 0.65
183 39 0.23
184 21 0.12
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (182 bp):
CTTGAGTGAAATATGAAATAGAACTATTGGACTAGGTGATGTTTAGTGAACTTGTTCTCACAACA
AACACCTATATGTTAACCTCAAGTATCACAATACTTCAATCTCATGAGATCAATTGCATGAACCA
CATGCATTAAGGCTTATCATATGCTAGTCATTATGCATTATCAATGCTCGAT
Found at i:1394133 original size:93 final size:93
Alignment explanation
Indices: 1393927--1394141 Score: 277
Period size: 93 Copynumber: 2.3 Consensus size: 93
1393917 AAGAACGGAG
* * * *
1393927 TTAAATTATCTCCTCAGAGATGGTGGGGTTGGAGTATCCCCAGAGATGAAAATTTGATGTTTTTA
1 TTAAAGTATCCCCTCAGAGGTGGTGGGGTTGGAGTATCCCCAAAGATGAAAATTTGATGTTTTTA
1393992 TAAATCGAATTTTAGAGTAAAAACAGGA
66 TAAATCGAATTTTAGAGTAAAAACAGGA
* * * * *
1394020 TTAAAGTGTCCTCTCAGAGGTGGTGGGGTTGGAGTGTCCTCAAAGATGACAATTTGATGTTTTTA
1 TTAAAGTATCCCCTCAGAGGTGGTGGGGTTGGAGTATCCCCAAAGATGAAAATTTGATGTTTTTA
* * * *
1394085 TAAATTGAATTTTAGTGTAAAAATAGGG
66 TAAATCGAATTTTAGAGTAAAAACAGGA
** **
1394113 TTGGAGTATCCCCTTGGAGGTGGTGGGGT
1 TTAAAGTATCCCCTCAGAGGTGGTGGGGT
1394142 GACAATTTGA
Statistics
Matches: 103, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
93 103 1.00
ACGTcount: A:0.29, C:0.10, G:0.27, T:0.33
Consensus pattern (93 bp):
TTAAAGTATCCCCTCAGAGGTGGTGGGGTTGGAGTATCCCCAAAGATGAAAATTTGATGTTTTTA
TAAATCGAATTTTAGAGTAAAAACAGGA
Found at i:1397261 original size:55 final size:55
Alignment explanation
Indices: 1397177--1397302 Score: 216
Period size: 55 Copynumber: 2.3 Consensus size: 55
1397167 TTTCACAATT
* *
1397177 TGTATCGATACATTCTTCATTGTATCAATATATTATGGGTTTTACCCAACCCAAA
1 TGTATCGATACATTTTTCATTGTATCAATACATTATGGGTTTTACCCAACCCAAA
* *
1397232 TGTATCGATACATTTTTCATTGTATCAATACATTTTGGGTTTTACCCAACGCAAA
1 TGTATCGATACATTTTTCATTGTATCAATACATTATGGGTTTTACCCAACCCAAA
1397287 TGTATCGATACATTTT
1 TGTATCGATACATTTT
1397303 GGGTTTTACA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.40
Consensus pattern (55 bp):
TGTATCGATACATTTTTCATTGTATCAATACATTATGGGTTTTACCCAACCCAAA
Done.