Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002616.1 Hibiscus syriacus cultivar Beakdansim tig00005294_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1287628
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 7
Found at i:931201 original size:16 final size:16
Alignment explanation
Indices: 931158--931201 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
931148 TGTATATATA
*
931158 ATTTTTTATTTAACTT
1 ATTTTTTATTTAAATT
* *
931174 ACTATTTATTTAAATT
1 ATTTTTTATTTAAATT
*
931190 ATTTTTTGTTTA
1 ATTTTTTATTTA
931202 TAAATTGAAT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (16 bp):
ATTTTTTATTTAAATT
Found at i:934407 original size:17 final size:17
Alignment explanation
Indices: 934385--934428 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
934375 TTCTAGTACC
934385 TATTATTGTTATTTTTG
1 TATTATTGTTATTTTTG
934402 TATTATTGTTATTTTTG
1 TATTATTGTTATTTTTG
* *
934419 AATTGTTGTT
1 TATTATTGTT
934429 TGATTTACTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.18, C:0.00, G:0.14, T:0.68
Consensus pattern (17 bp):
TATTATTGTTATTTTTG
Found at i:937854 original size:196 final size:196
Alignment explanation
Indices: 937520--937910 Score: 721
Period size: 196 Copynumber: 2.0 Consensus size: 196
937510 TTGGTTCTTC
*
937520 CCACTTTTTCTGCCTTTCATTATGATTAGTTCCTCAAGTTCAATTGAATCATAGTTATCCACGCT
1 CCACTTTTTCTGCCTTTCATTATGATTAGTTCCTCAAGTTCAATTGAATCAGAGTTATCCACGCT
937585 TTCTTGTTAAGAGGTATTATCCCACATCTACTTAAGCATTGGGTTTCTATGGTCTTATATTCAAG
66 TTCTTGTTAAGAGGTATTATCCCACATCTACTTAAGCATTGGGTTTCTATGGTCTTATATTCAAG
*
937650 ACGCTTTTGCCTAGAACAAGTTGTTTTTAAGATGGATGAATGTGCTGTCTGAGCTCAGGTGTGTT
131 ACGCTTTTGCCTAGAACAAATTGTTTTTAAGATGGATGAATGTGCTGTCTGAGCTCAGGTGTGTT
937715 A
196 A
*
937716 CCACTTTTTCTGCCTTTCATTATGATTAGTTCCTCAAGTTCAATTGAATCCGAGTTATCCACGCT
1 CCACTTTTTCTGCCTTTCATTATGATTAGTTCCTCAAGTTCAATTGAATCAGAGTTATCCACGCT
*
937781 TTCTTGTTAAGTGGTATTATCCCACATCTACTTAAGCATTGGGTTTCTATGGTCTTATATTCAAG
66 TTCTTGTTAAGAGGTATTATCCCACATCTACTTAAGCATTGGGTTTCTATGGTCTTATATTCAAG
*
937846 -CTGCTTTTGCCTAGCACAAATTGTTTTTAAGATGGATGAATGTGCTGTCTGAGCTCAGGTGTGT
131 AC-GCTTTTGCCTAGAACAAATTGTTTTTAAGATGGATGAATGTGCTGTCTGAGCTCAGGTGTGT
937910 T
195 T
937911 CTGTTGTTCC
Statistics
Matches: 189, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
195 1 0.01
196 188 0.99
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (196 bp):
CCACTTTTTCTGCCTTTCATTATGATTAGTTCCTCAAGTTCAATTGAATCAGAGTTATCCACGCT
TTCTTGTTAAGAGGTATTATCCCACATCTACTTAAGCATTGGGTTTCTATGGTCTTATATTCAAG
ACGCTTTTGCCTAGAACAAATTGTTTTTAAGATGGATGAATGTGCTGTCTGAGCTCAGGTGTGTT
A
Found at i:948176 original size:18 final size:18
Alignment explanation
Indices: 948153--948196 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
948143 AAACTAAACA
*
948153 CATAATTAAGATATATTT
1 CATAATCAAGATATATTT
948171 CATAATCAAGATATATTT
1 CATAATCAAGATATATTT
948189 CATAATCA
1 CATAATCA
948197 TTGACACACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.45, C:0.11, G:0.05, T:0.39
Consensus pattern (18 bp):
CATAATCAAGATATATTT
Found at i:950019 original size:30 final size:31
Alignment explanation
Indices: 949985--950083 Score: 75
Period size: 30 Copynumber: 3.3 Consensus size: 31
949975 ATAAAGGATT
949985 AAAATAATAAAAATAGAAACTAAAGGGA-CC
1 AAAATAATAAAAATAGAAACTAAAGGGATCC
* * *
950015 AAAATGGATGAAACA-A-AAACTAAAGGGATTC
1 AAAAT-AAT-AAAAATAGAAACTAAAGGGATCC
** *
950046 -AAATAGCAAAAATAGAAACTTAAGGG-T-C
1 AAAATAATAAAAATAGAAACTAAAGGGATCC
*
950074 TAAATAATAA
1 AAAATAATAA
950084 TTACAAATAA
Statistics
Matches: 53, Mismatches: 10, Indels: 13
0.70 0.13 0.17
Matches are distributed among these distances:
28 5 0.09
29 9 0.17
30 31 0.58
31 4 0.08
32 4 0.08
ACGTcount: A:0.59, C:0.09, G:0.15, T:0.17
Consensus pattern (31 bp):
AAAATAATAAAAATAGAAACTAAAGGGATCC
Found at i:951646 original size:3 final size:3
Alignment explanation
Indices: 951638--951664 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
951628 AATAAAAATG
951638 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
951665 ATAAAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:952243 original size:20 final size:21
Alignment explanation
Indices: 952214--952255 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
952204 TCTGTAAAAC
*
952214 TTTATTTAATTAATT-ATATT
1 TTTATATAATTAATTAATATT
*
952234 TTTATATAATTATTTAATATT
1 TTTATATAATTAATTAATATT
952255 T
1 T
952256 AATTTATAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTATATAATTAATTAATATT
Found at i:952587 original size:2 final size:2
Alignment explanation
Indices: 952580--952641 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
952570 ACTAAAAATA
952580 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
952622 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
952642 TTCGGGTCGG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:953000 original size:2 final size:2
Alignment explanation
Indices: 952995--953028 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
952985 TTTTATTCGG
952995 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
953029 GTTTGCAAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:953095 original size:38 final size:37
Alignment explanation
Indices: 953011--953107 Score: 106
Period size: 38 Copynumber: 2.6 Consensus size: 37
953001 ATATATATAT
* * *
953011 ATATATATATATTATATAGTTTGCAAACGGTTTGAAA
1 ATATATATATAATATATAGTTTCCAAACGATTTGAAA
** *
953048 ATACGTATATAATATATAGTTTCCAAAAAC-ATTTTAAA
1 ATATATATATAATATATAGTTTCC--AAACGATTTGAAA
*
953086 ATATATATATAATATATGGTTT
1 ATATATATATAATATATAGTTT
953108 TTAAAACACT
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
37 20 0.41
38 25 0.51
39 4 0.08
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.41
Consensus pattern (37 bp):
ATATATATATAATATATAGTTTCCAAACGATTTGAAA
Found at i:953171 original size:74 final size:74
Alignment explanation
Indices: 953055--953232 Score: 202
Period size: 75 Copynumber: 2.4 Consensus size: 74
953045 AAAATACGTA
** *
953055 TATAATATATAGTTTCCAAAAACATTTTAAAATATATATATAATATAT-GGTTTTTAAAA-CACT
1 TATAATATATAGTTTTTAAAAACATTTTAAAATATATATATAATATATAAGTTTTTAAAATCA-T
953118 TTTGAAAACGG
65 TTTGAAAAC-G
* *
953129 TATAATATATAGTTTTTTAAAAACATTTTAGGAA-A-ATATATAATATATAATTTTTTAAAATCA
1 TATAATATATAG-TTTTTAAAAACATTTTA-AAATATATATATAATATATAAGTTTTTAAAATCA
* *
953192 TTTTGAAAGCT
64 TTTTGAAAACG
*
953203 TATAAAATATATAGTTTTTGAAAACATTTT
1 TAT--AATATATAGTTTTTAAAAACATTTT
953233 TTAAAAACTT
Statistics
Matches: 90, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
74 28 0.31
75 49 0.54
76 13 0.14
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.43
Consensus pattern (74 bp):
TATAATATATAGTTTTTAAAAACATTTTAAAATATATATATAATATATAAGTTTTTAAAATCATT
TTGAAAACG
Found at i:953175 original size:36 final size:36
Alignment explanation
Indices: 953053--953278 Score: 141
Period size: 38 Copynumber: 6.2 Consensus size: 36
953043 TGAAAATACG
**
953053 TATATAATATATAG-TTTCCAAAAACATTTTA-AAATA
1 TATAT-ATATATAGTTTTTTAAAAACATTTTAGAAA-A
*
953089 TATATATAATATATGGTTTTT-AAAACACTTTT-GAAAA
1 TATATAT-ATATA-GTTTTTTAAAAACA-TTTTAGAAAA
953126 CGGTATA-ATATATAGTTTTTTAAAAACATTTTAGGAAAA
1 ---TATATATATATAGTTTTTTAAAAACATTTTA-GAAAA
* * *
953165 TATATAATATATAATTTTTTAAAATCATTTT-GAAAGCT
1 TATAT-ATATATAGTTTTTTAAAAACATTTTAGAAA--A
* * **
953203 TATAAAATATATAG-TTTTTGAAAACATTTTTTAAAA
1 TAT-ATATATATAGTTTTTTAAAAACATTTTAGAAAA
* *
953239 -A-CT-TATATAGTTTTTT-AAAACATTTTTGAAAA
1 TATATATATATAGTTTTTTAAAAACATTTTAGAAAA
*
953271 TTTATATA
1 TATATATA
953279 GTTCTAAAAC
Statistics
Matches: 152, Mismatches: 17, Indels: 43
0.72 0.08 0.20
Matches are distributed among these distances:
32 22 0.14
33 5 0.03
34 1 0.01
35 5 0.03
36 18 0.12
37 32 0.21
38 57 0.38
39 8 0.05
40 4 0.03
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (36 bp):
TATATATATATAGTTTTTTAAAAACATTTTAGAAAA
Found at i:953276 original size:31 final size:31
Alignment explanation
Indices: 953210--953369 Score: 152
Period size: 31 Copynumber: 5.2 Consensus size: 31
953200 GCTTATAAAA
* *
953210 TATATAGTTTTTGAAAACATTTTTTAAAAACT
1 TATATAGTTTTTTAAAACA-TTTTTGAAAACT
*
953242 TATATAGTTTTTTAAAACATTTTTGAAAATT
1 TATATAGTTTTTTAAAACATTTTTGAAAACT
* * *
953273 TATATAG--TTCTAAAACGTTTTTGAAAAAT
1 TATATAGTTTTTTAAAACATTTTTGAAAACT
* *
953302 TATATA--TTTTAAAAACATTTTCTTTAAAACT
1 TATATAGTTTTTTAAAACA-TTT-TTGAAAACT
*
953333 TATATAATATTTTTAAAAACA-TTTTGAAAAC-
1 TATATAGT-TTTTT-AAAACATTTTTGAAAACT
953364 TATATA
1 TATATA
953370 ATATATAGTT
Statistics
Matches: 108, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
29 32 0.30
30 3 0.03
31 36 0.33
32 25 0.23
33 2 0.02
34 4 0.04
35 6 0.06
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.46
Consensus pattern (31 bp):
TATATAGTTTTTTAAAACATTTTTGAAAACT
Found at i:953287 original size:29 final size:29
Alignment explanation
Indices: 953206--953322 Score: 130
Period size: 29 Copynumber: 3.9 Consensus size: 29
953196 GAAAGCTTAT
*
953206 AAAA-TATATAGTTTTTGAAAACATTTTTTA
1 AAAATTATATAG-TTTT-AAAACATTTTTGA
953236 AAAACTTATATAGTTTTTTAAAACATTTTTGA
1 AAAA-TTATATAG--TTTTAAAACATTTTTGA
* * *
953268 AAATTTATATAGTTCTAAAACGTTTTTGA
1 AAAATTATATAGTTTTAAAACATTTTTGA
953297 AAAATTATATA-TTTTAAAAACATTTT
1 AAAATTATATAGTTTT-AAAACATTTT
953323 CTTTAAAACT
Statistics
Matches: 76, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
28 3 0.04
29 34 0.45
30 4 0.05
31 8 0.11
32 22 0.29
33 5 0.07
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (29 bp):
AAAATTATATAGTTTTAAAACATTTTTGA
Found at i:953477 original size:15 final size:15
Alignment explanation
Indices: 953440--953491 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
953430 GAAATATATA
953440 TTATATAATTTATATTAT
1 TTAT-TAATTTAT-TT-T
*
953458 TTATTTATTT-TCTTT
1 TTATTAATTTAT-TTT
953473 TTATTAATTTATTTT
1 TTATTAATTTATTTT
953488 TTAT
1 TTAT
953492 GTTTTTTCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 17 0.57
16 4 0.13
17 5 0.17
18 4 0.13
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (15 bp):
TTATTAATTTATTTT
Found at i:953481 original size:32 final size:31
Alignment explanation
Indices: 953440--953499 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 31
953430 GAAATATATA
953440 TTATATAATTTATATTATTTAT-TTATTTTCTTT
1 TTATATAATTTAT-TT-TTTATGTT-TTTTCTTT
953473 TTAT-TAATTTATTTTTTATGTTTTTTC
1 TTATATAATTTATTTTTTATGTTTTTTC
953500 AGGGTCCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
30 10 0.38
31 4 0.15
32 8 0.31
33 4 0.15
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.72
Consensus pattern (31 bp):
TTATATAATTTATTTTTTATGTTTTTTCTTT
Found at i:954444 original size:2 final size:2
Alignment explanation
Indices: 954439--954478 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
954429 CTCAAAACGC
954439 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
954479 GCGAATTGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:963004 original size:33 final size:33
Alignment explanation
Indices: 962962--963042 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
962952 GAACTTGATT
962962 AATAATTAAAACATTTACAACGTAGGTAATCGG
1 AATAATTAAAACATTTACAACGTAGGTAATCGG
* *
962995 AATAATTAAAACATATACAATGTAGGTAATCGG
1 AATAATTAAAACATTTACAACGTAGGTAATCGG
*
963028 AATAATTAAAGCATT
1 AATAATTAAAACATT
963043 CAAAAACAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.28
Consensus pattern (33 bp):
AATAATTAAAACATTTACAACGTAGGTAATCGG
Found at i:971142 original size:10 final size:10
Alignment explanation
Indices: 971121--971169 Score: 68
Period size: 10 Copynumber: 5.1 Consensus size: 10
971111 TTCGAGCTTT
971121 ATAATA-ATA
1 ATAATATATA
971130 ATAATATATA
1 ATAATATATA
971140 ATAATATATA
1 ATAATATATA
971150 ATAA-ATAT-
1 ATAATATATA
971158 ATATATATATA
1 ATA-ATATATA
971169 A
1 A
971170 ACGTCACTCG
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
8 3 0.08
9 11 0.31
10 21 0.58
11 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
ATAATATATA
Found at i:971649 original size:96 final size:96
Alignment explanation
Indices: 971536--971909 Score: 556
Period size: 96 Copynumber: 3.9 Consensus size: 96
971526 GAAATTGGAT
** * *
971536 TTGCTTCACTACTCTTTCGTGAAGGTTTCATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCA
1 TTGCTTCACTACTCTTTCGTGAAGACTTCATACTTTGCTGAAAAATACGTTCCACTACTCTTCCG
971601 TGGAGAAT-GAATTTTGATATTGTTCTTGCTC
66 TGGAG-ATCGAATTTTGATATTGTTCTTGCTC
*
971632 TTGCTTCACTACTCTTTCGTGAAGACTTCATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCG
1 TTGCTTCACTACTCTTTCGTGAAGACTTCATACTTTGCTGAAAAATACGTTCCACTACTCTTCCG
* * *
971697 TGGAGATCGAATTTTAATCTTATTCTTGCTC
66 TGGAGATCGAATTTTGATATTGTTCTTGCTC
* * * *
971728 TTGCTTCACTACTCTTCCATGAAGACTTTATACTTTGCTGAAAAATATGTTCCACTACTCTT-CG
1 TTGCTTCACTACTCTTTCGTGAAGACTTCATACTTTGCTGAAAAATACGTTCCACTACTCTTCCG
* *
971792 TGGAGATCAAATTTTGATCTTGTTCTTGCTC
66 TGGAGATCGAATTTTGATATTGTTCTTGCTC
* *
971823 TTACTTCACTACTC-TTCTGTGAAGACTTCATACTTTGCTGAAAAATATGTTCCACTACTCTTCC
1 TTGCTTCACTACTCTTTC-GTGAAGACTTCATACTTTGCTGAAAAATACGTTCCACTACTCTTCC
*
971887 GTGGAGATTGAATTTTGATATTG
65 GTGGAGATCGAATTTTGATATTG
971910 ATTTGATTCC
Statistics
Matches: 254, Mismatches: 21, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
94 2 0.01
95 87 0.34
96 165 0.65
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.40
Consensus pattern (96 bp):
TTGCTTCACTACTCTTTCGTGAAGACTTCATACTTTGCTGAAAAATACGTTCCACTACTCTTCCG
TGGAGATCGAATTTTGATATTGTTCTTGCTC
Found at i:971852 original size:191 final size:192
Alignment explanation
Indices: 971536--971902 Score: 571
Period size: 191 Copynumber: 1.9 Consensus size: 192
971526 GAAATTGGAT
* * * *
971536 TTGCTTCACTACTCTTTCGTGAAGGTTTCATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCA
1 TTGCTTCACTACTCTTCCATGAAGCTTTCATACTTTGCTGAAAAATACGTTCCACTACTCTTCCA
* *
971601 TGGAGAATGAATTTTGATATTGTTCTTGCTCTTGCTTCACTACTCTTTCGTGAAGACTTCATACT
66 TGGAGAATAAATTTTGATATTGTTCTTGCTCTTACTTCACTACTCTTTCGTGAAGACTTCATACT
*
971666 TTGCTGAAAAATCCGTTCCACTACTCTTCCGTGGAGATCGAATTTTAATCTTATTCTTGCTC
131 TTGCTGAAAAATACGTTCCACTACTCTTCCGTGGAGATCGAATTTTAATCTTATTCTTGCTC
*
971728 TTGCTTCACTACTCTTCCATGAAGACTTT-ATACTTTGCTGAAAAATATGTTCCACTACTCTT-C
1 TTGCTTCACTACTCTTCCATGAAG-CTTTCATACTTTGCTGAAAAATACGTTCCACTACTCTTCC
* *
971791 GTGGAG-ATCAAATTTTGATCTTGTTCTTGCTCTTACTTCACTACTC-TTCTGTGAAGACTTCAT
65 ATGGAGAAT-AAATTTTGATATTGTTCTTGCTCTTACTTCACTACTCTTTC-GTGAAGACTTCAT
* *
971854 ACTTTGCTGAAAAATATGTTCCACTACTCTTCCGTGGAGATTGAATTTT
128 ACTTTGCTGAAAAATACGTTCCACTACTCTTCCGTGGAGATCGAATTTT
971903 GATATTGATT
Statistics
Matches: 160, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
190 5 0.03
191 99 0.62
192 53 0.33
193 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (192 bp):
TTGCTTCACTACTCTTCCATGAAGCTTTCATACTTTGCTGAAAAATACGTTCCACTACTCTTCCA
TGGAGAATAAATTTTGATATTGTTCTTGCTCTTACTTCACTACTCTTTCGTGAAGACTTCATACT
TTGCTGAAAAATACGTTCCACTACTCTTCCGTGGAGATCGAATTTTAATCTTATTCTTGCTC
Found at i:972025 original size:20 final size:20
Alignment explanation
Indices: 972000--972068 Score: 104
Period size: 20 Copynumber: 3.5 Consensus size: 20
971990 ACCCAAAGGA
*
972000 TTTACAAATTACCCGGAGG-
1 TTTACAAATGACCCGGAGGC
972019 TTCTACAAATGACCCGGAGGC
1 TT-TACAAATGACCCGGAGGC
*
972040 TTTACAAATGACCCAGAGGC
1 TTTACAAATGACCCGGAGGC
972060 TTTACAAAT
1 TTTACAAAT
972069 TCGTGGGAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
19 2 0.04
20 42 0.91
21 2 0.04
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (20 bp):
TTTACAAATGACCCGGAGGC
Found at i:977220 original size:2 final size:2
Alignment explanation
Indices: 977213--977239 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
977203 TAATTATTGT
977213 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
977240 TGTAGATTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:977300 original size:2 final size:2
Alignment explanation
Indices: 977293--977369 Score: 154
Period size: 2 Copynumber: 38.5 Consensus size: 2
977283 ATAATACTAA
977293 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
977335 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
977370 AGCAATCCAT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 75 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:984947 original size:20 final size:22
Alignment explanation
Indices: 984906--984950 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
984896 ACTAACTTTG
*
984906 ATTTATCTTTGTTATCTATTAT
1 ATTTATCTTTATTATCTATTAT
984928 ATTTAT-TTTATTAT-TATTAT
1 ATTTATCTTTATTATCTATTAT
984948 ATT
1 ATT
984951 AATATTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.41
21 7 0.32
22 6 0.27
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (22 bp):
ATTTATCTTTATTATCTATTAT
Found at i:985075 original size:6 final size:6
Alignment explanation
Indices: 985064--985089 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
985054 AATCGGGTTC
985064 TTAAAT TTAAAT TTAAAT TTAAAT TT
1 TTAAAT TTAAAT TTAAAT TTAAAT TT
985090 TCACGAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTAAAT
Found at i:989002 original size:106 final size:106
Alignment explanation
Indices: 988813--990327 Score: 2425
Period size: 106 Copynumber: 14.2 Consensus size: 106
988803 AAAAGTTGTC
* * * * * * *
988813 TGTCAACAAACAACTTTCCAATTTCATTCAAAGTCTATTTCAACTTCGCAGCGAAGAAAATTGGA
1 TGTCAATAAACAACTTTCCAA--T--TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
988878 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
62 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
*
988923 TGTCAATAAATAACTTTCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
1 TGTCAATAAACAACTTTCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
988988 AGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
*
989029 TGTCAATAAACAATTTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
1 TGTCAATAAACAACTTT-CCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
989094 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
65 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * *
989136 TGTCAACAAACAA-TTTCTCAATTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
1 TGTCAATAAACAACTTTC-CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
*
989200 CAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGT
65 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
*
989242 TGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
1 TGTCAATAAACAACTTTCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
989307 AGACAACGCAAGTTCAACTTCACGACAAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * * *
989348 TGTCAACAAACAAC-TTCTCAATTTCAAAGCCAATTTTAACTTCACAACGAAGGATATTGGACTC
1 TGTCAATAAACAACTTTC-CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
989412 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
65 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * *
989454 TGTCAATAAACAACTTCCCAATTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCT
1 TGTCAATAAACAACTTTCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* *
989519 AGACAATGCAAGTTCAACTTCATGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* *
989560 TGTCAACAAACAA-TTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGGACT-
1 TGTCAATAAACAACTTT-CCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
989623 CATGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
65 CA-GACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
*
989666 TGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
1 TGTCAATAAACAACTTTCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
989731 AGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
*
989772 TTTCAATAAACAA-TTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
1 TGTCAATAAACAACTTT-CCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
* * *
989836 AAGACAACTCAAGTTCAACTTCACGACGAAGGGATCGCTGGT
65 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* *
989878 TGTCAAAAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
1 TGTCAATAAACAACTTTCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* *
989943 AGACAATGCAAGTTCAACTTCACGATGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* *
989984 TGTCAACAAACAA-TTTCCCAATTTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTC
1 TGTCAATAAACAACTTT-CCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
990048 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
65 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* *
990090 TGTCAACAAATAAC-TTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
1 TGTCAATAAACAACTTTC-CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
* *
990154 CAGACAATGCAAGTTCAACTTCATGACGAAGGGACCGCTGGT
65 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
*
990196 TGGCAATAAACAA-TTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
1 TGTCAATAAACAACTTT-CCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
* *
990260 AAGACAACGCAAGTTCAACTTCAAGACGAAGGGACCGCTGGT
65 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* *
990302 TGTCAATAAACAACTTCCCAACTTCA
1 TGTCAATAAACAACTTTCCAATTTCA
990328 CAGCGAAGGA
Statistics
Matches: 1308, Mismatches: 80, Indels: 38
0.92 0.06 0.03
Matches are distributed among these distances:
105 11 0.01
106 1163 0.89
107 114 0.09
108 1 0.00
110 19 0.01
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
TGTCAATAAACAACTTTCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
Found at i:989354 original size:212 final size:212
Alignment explanation
Indices: 988849--990754 Score: 2814
Period size: 212 Copynumber: 9.2 Consensus size: 212
988839 TTCAAAGTCT
* * *
988849 ATTTCAACTTCGCAGCGAAGAAAATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
988914 ACCGCTGGTTGTCAATAAATAACTTT-CCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGAT
66 ACCGCTGGTTGTCAACAAACAA-TTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGAT
*
988978 ATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAT
130 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAA-
*
989043 TTTCCCAATTTCAGAGCCA
194 CTTCCCAATTTCAGAGCCA
989062 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * *
989127 ACCGCTGGTTGTCAACAAACAATTTCTCAATTTCAAAGCCAATTTCAACTTCACAACGAAGGATA
66 ACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATA
*
989192 TTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACT
131 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACT
989257 TCCCAATTTCAGAGCCA
196 TCCCAATTTCAGAGCCA
*
989274 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACAAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * * * *
989339 ACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAAAGCCAATTTTAACTTCACAACGAAGGATA
66 ACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATA
989404 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACT
131 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACT
*
989469 TCCCAATTTCAGAGTCA
196 TCCCAATTTCAGAGCCA
* * *
989486 ATTTCAACTTCACAGCGAAGGATATTGGACTCTAGACAATGCAAGTTCAACTTCATGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
989551 ACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAATGATA
66 ACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATA
989616 TTGGACT-CATGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAC
131 TTGGACTCCA-GACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAC
989680 TTCCCAATTTCAGAGCCA
195 TTCCCAATTTCAGAGCCA
*
989698 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
989763 ACCGCTGGTTTTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATA
66 ACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATA
* * * *
989828 TTGGACTCAAGACAACTCAAGTTCAACTTCACGACGAAGGGATCGCTGGTTGTCAAAAAACAACT
131 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACT
989893 TCCCAATTTCAGAGCCA
196 TCCCAATTTCAGAGCCA
* *
989910 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGATGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
989975 ACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGTGAAGGATA
66 ACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATA
* *
990040 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAACT
131 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACT
*
990105 TCTCAATTTCAGAGCCA
196 TCCCAATTTCAGAGCCA
* *
990122 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCATGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
990187 ACCGCTGGTTGGCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATA
66 ACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATA
* *
990252 TTGGACTCAAGACAACGCAAGTTCAACTTCAAGACGAAGGGACCGCTGGTTGTCAATAAACAA--
131 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACT
990315 ---C---TT-----CC-
196 TCCCAATTTCAGAGCCA
* *
990320 ----CAACTTCACAGCGAAGGATATTGGACTCAAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * * *
990381 ACCGCTGGTTGTCAATAAATAACTTCCCAATTTCA-A--C---TT---C-TCA-A-CGAAGGATC
66 ACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATA
* * * * * * *
990434 TTAGAC-CCAAGACAACACAAGCTCAACTTCACGACGAAGGGGCGGCTGATTGTCAGT-AA-AA-
131 TTGGACTCC-AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAC
* *
990495 TT-TC-A-TTCAGAGTCA
195 TTCCCAATTTCAGAGCCA
* * * * * *
990510 ATTTCAACTTCATAGCGAAGGATATTAGACTCGAGACAGCACAAGTTCAACTTCACAAACGAAGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC-GACGAAGG
* *
990575 GACGGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGAT
65 GACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGAT
* * * *
990640 ATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTCAACAAACAA
130 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAATAAACAA
* ** *
990704 TTTCCCGGTTCCAGAGCCA
194 CTTCCCAATTTCAGAGCCA
990723 ATTTCAACTTCA-AGACGAAGGATATTGGACTC
1 ATTTCAACTTCACAG-CGAAGGATATTGGACTC
990755 GGAACAATGC
Statistics
Matches: 1555, Mismatches: 98, Indels: 80
0.90 0.06 0.05
Matches are distributed among these distances:
180 2 0.00
181 3 0.00
182 54 0.03
183 2 0.00
184 5 0.00
185 1 0.00
188 2 0.00
189 1 0.00
191 1 0.00
193 1 0.00
194 137 0.09
195 40 0.03
196 1 0.00
198 1 0.00
199 2 0.00
201 2 0.00
204 3 0.00
205 3 0.00
206 2 0.00
207 53 0.03
208 3 0.00
209 2 0.00
210 2 0.00
211 3 0.00
212 1013 0.65
213 216 0.14
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.23
Consensus pattern (212 bp):
ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATA
TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACT
TCCCAATTTCAGAGCCA
Found at i:989533 original size:318 final size:318
Alignment explanation
Indices: 988813--990754 Score: 2794
Period size: 318 Copynumber: 6.2 Consensus size: 318
988803 AAAAGTTGTC
* * * * * * *
988813 TGTCAACAAACAACTTTCCAATTTCATTCAAAGTCTATTTCAACTTCGCAGCGAAGAAAATTGGA
1 TGTCAACAAACAACTTCCCAA--T--TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* *
988878 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAACTTTCCA
62 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCA
*
988943 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTT
127 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
* *
989008 CACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTTCCCAATTTCAGAGCCAATTTCAACTTC
192 CACGACGAAGGGACCGCTGGTTGTCAACAAACAA-CTTCCCAATTTCAGAGCCAATTTCAACTTC
989073 ACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
256 ACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * * *
989136 TGTCAACAAACAATTTCTCAATTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
1 TGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
989201 AGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
989266 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
131 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * * * *
989331 ACAAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAAAGCCAATTTTAACTTCACAAC
196 ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGC
989396 GAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
261 GAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * *
989454 TGTCAATAAACAACTTCCCAATTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCT
1 TGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * * *
989519 AGACAATGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
*
989584 CAGAGCCAATTTCAACTTCACAGCGAATGATATTGGACT-CATGACAACGCAAGTTCAACTTCAC
131 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCA-GACAACGCAAGTTCAACTTCAC
*
989648 GACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAG
195 GACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAG
*
989713 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGT
260 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * * *
989772 TTTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
1 TGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * *
989837 AGACAACTCAAGTTCAACTTCACGACGAAGGGATCGCTGGTTGTCAAAAAACAACTTCCCAATTT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
*
989902 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACG
131 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * *
989967 ATGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGT
196 ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGC
990032 GAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
261 GAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* *
990090 TGTCAACAAATAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
1 TGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * * *
990155 AGACAATGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGGCAATAAACAATTTCCCAATTT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
* *
990220 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCAAG
131 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
990285 ACGAAGGGACCGCTGGTTGTCAATAAACAA-----C---TT-----CC-----CAACTTCACAGC
196 ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGC
* *
990332 GAAGGATATTGGACTCAAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
261 GAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * * *
990390 TGTCAATAAATAACTTCCCAATTTCA-A--C---TT---C-TCA-A-CGAAGGATCTTAGAC-CC
1 TGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * * * * * *
990442 AAGACAACACAAGCTCAACTTCACGACGAAGGGGCGGCTGATTGTCAGT-AA-AA-TT-TC-A-T
66 -AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATT
* * * * * *
990501 TCAGAGTCAATTTCAACTTCATAGCGAAGGATATTAGACTCGAGACAGCACAAGTTCAACTTCAC
130 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
* *
990566 AAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
195 -GACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
* * *
990631 GCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGACTGGT
259 GCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGT
* ** *
990691 TGTCAACAAACAATTTCCCGGTTCCAGAGCCAATTTCAACTTCA-AGACGAAGGATATTGGACTC
1 TGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGGACTC
990755 GGAACAATGC
Statistics
Matches: 1469, Mismatches: 114, Indels: 81
0.88 0.07 0.05
Matches are distributed among these distances:
282 59 0.04
283 29 0.02
284 1 0.00
285 2 0.00
286 2 0.00
287 4 0.00
288 53 0.04
289 1 0.00
290 3 0.00
291 3 0.00
294 2 0.00
296 2 0.00
297 1 0.00
299 1 0.00
300 93 0.06
301 83 0.06
302 1 0.00
304 1 0.00
305 2 0.00
307 2 0.00
310 3 0.00
311 4 0.00
313 14 0.01
314 1 0.00
317 2 0.00
318 888 0.60
319 193 0.13
321 1 0.00
323 18 0.01
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (318 bp):
TGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGC
GAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
Found at i:990291 original size:43 final size:42
Alignment explanation
Indices: 990230--990379 Score: 128
Period size: 43 Copynumber: 3.5 Consensus size: 42
990220 CAGAGCCAAT
990230 TTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAG
1 TTCAACTTCACAGCGAAGGATATTGGACTCAAGACAA-GCAAG
*** ** * *
990273 TTCAACTTCA-AGACGAAGGGACCGCTGGTTGTCAATA-AA-CAAC
1 TTCAACTTCACAG-CGAA-GGA-TATTGG-ACTCAAGACAAGCAAG
990316 TTCCCAACTTCACAGCGAAGGATATTGGACTCAAGACAATGCAAG
1 TT--CAACTTCACAGCGAAGGATATTGGACTCAAGACAA-GCAAG
990361 TTCAACTTCAC-GACGAAGG
1 TTCAACTTCACAG-CGAAGG
990380 GACCGCTGGT
Statistics
Matches: 82, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
42 8 0.10
43 39 0.48
44 6 0.07
45 22 0.27
46 7 0.09
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.20
Consensus pattern (42 bp):
TTCAACTTCACAGCGAAGGATATTGGACTCAAGACAAGCAAG
Found at i:990325 original size:45 final size:45
Alignment explanation
Indices: 990275--990416 Score: 116
Period size: 45 Copynumber: 3.2 Consensus size: 45
990265 AACGCAAGTT
990275 CAACTTCAAGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCC
1 CAACTTCAAGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCC
*** ** * *
990320 CAACTTCACAG-CGAA-GGA-TATTGG-ACTCAAGACAATGCAAGTT--
1 CAACTTCA-AGACGAAGGGACCGCTGGTTGTCAATA-AA--CAACTTCC
* *
990363 CAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAACTTCC
1 CAACTTCAAGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCC
*
990408 CAATTTCAA
1 CAACTTCAA
990417 CTTCTCAACG
Statistics
Matches: 69, Mismatches: 18, Indels: 20
0.64 0.17 0.19
Matches are distributed among these distances:
42 6 0.09
43 21 0.30
44 6 0.09
45 29 0.42
46 7 0.10
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.22
Consensus pattern (45 bp):
CAACTTCAAGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCC
Found at i:990381 original size:88 final size:89
Alignment explanation
Indices: 990231--990610 Score: 361
Period size: 88 Copynumber: 4.1 Consensus size: 89
990221 AGAGCCAATT
* * *
990231 TCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCAAGACGAAGGGACC
1 TCAACTTCACAGCGAAGGATATTAGACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGACC
990296 GCTGGTTGTCAATAAACAACTTCC
66 GCTGGTTGTCAATAAACAACTTCC
* **
990320 -CAACTTCACAGCGAAGGATATTGGACTCAAGACAATGCAAGTTCAACTTCACGACGAAGGGACC
1 TCAACTTCACAGCGAAGGATATTAGACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGACC
*
990384 GCTGGTTGTCAATAAATAACTTCCC
66 GCTGGTTGTCAATAAACAACTT-CC
* * * * *
990409 AATTTCAACTTCTCAACGAAGGATCTTAGACCCAAGACAACACAAGCTCAACTTCACGACGAAGG
1 ----TCAACTTCACAGCGAAGGATATTAGACTCAAGACAACACAAGTTCAACTTCACGACGAAGG
* * * * *
990474 GGCGGCTGATTGTCAGTAAA-ATTTCATTCAGAGTC
62 GACCGCTGGTTGTCAATAAACA--AC-TTC-----C
* * * *
990509 AATTTCAACTTCATAGCGAAGGATATTAGACTCGAGACAGCACAAGTTCAACTTCACAAACGAAG
1 ----TCAACTTCACAGCGAAGGATATTAGACTCAAGACAACACAAGTTCAACTTCAC-GACGAAG
* *
990574 GGACGGCTGGTTGTCAACAAACAACTTCC
61 GGACCGCTGGTTGTCAATAAACAACTTCC
*
990603 -CAATTTCA
1 TCAACTTCA
990611 GAGCCAATTT
Statistics
Matches: 244, Mismatches: 31, Indels: 32
0.79 0.10 0.10
Matches are distributed among these distances:
88 83 0.34
89 9 0.04
93 1 0.00
94 69 0.28
95 2 0.01
96 2 0.01
99 3 0.01
100 51 0.21
101 23 0.09
102 1 0.00
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (89 bp):
TCAACTTCACAGCGAAGGATATTAGACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGACC
GCTGGTTGTCAATAAACAACTTCC
Found at i:990470 original size:94 final size:94
Alignment explanation
Indices: 990119--990709 Score: 514
Period size: 106 Copynumber: 6.0 Consensus size: 94
990109 AATTTCAGAG
* * ** *
990119 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCATGACGAA
1 CCAATTTCAACTTCACAGCGAAGGATATTAGACTCAAGACAACACAAGTTCAACTTCACGACGAA
*
990184 GGGACCGCTGGTTGGCAATAAACAATTTCCCAATTTC
66 GGGACCGCTGGTTGTCAATAAACAA-----C---TTC
* * *
990221 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCAAGA
1 ----CCAATTTCAACTTCACAGCGAAGGATATTAGACTCAAGACAACACAAGTTCAACTTCACGA
990286 CGAAGGGACCGCTGGTTGTCAATAAACAACTT-
62 CGAAGGGACCGCTGGTTGTCAATAAACAACTTC
* **
990318 CC-----CAACTTCACAGCGAAGGATATTGGACTCAAGACAATGCAAGTTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAGCGAAGGATATTAGACTCAAGACAACACAAGTTCAACTTCACGACGAA
*
990378 GGGACCGCTGGTTGTCAATAAATAACTTC
66 GGGACCGCTGGTTGTCAATAAACAACTTC
* * * * *
990407 CCAATTTCAACTTCTCAACGAAGGATCTTAGACCCAAGACAACACAAGCTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAGCGAAGGATATTAGACTCAAGACAACACAAGTTCAACTTCACGACGAA
* * * * *
990472 GGGGCGGCTGATTGTCAGTAAA-ATTTCATTC
66 GGGACCGCTGGTTGTCAATAAACA--AC-TTC
* * * * *
990503 AGAGTCAATTTCAACTTCATAGCGAAGGATATTAGACTCGAGACAGCACAAGTTCAACTTCACAA
1 ----CCAATTTCAACTTCACAGCGAAGGATATTAGACTCAAGACAACACAAGTTCAACTTCAC-G
* *
990568 ACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCCAATTTC
61 ACGAAGGGACCGCTGGTTGTCAATAAACAA-----C---TTC
* * *
990610 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
1 ----CCAATTTCAACTTCACAGCGAAGGATATTAGACTCAAGACAACACAAGTTCAACTTCACGA
* *
990675 CGAAGGGA-CGACTGGTTGTCAACAAACAATTTC
62 CGAAGGGACCG-CTGGTTGTCAATAAACAACTTC
990708 CC
1 CC
990710 GGTTCCAGAG
Statistics
Matches: 420, Mismatches: 42, Indels: 58
0.81 0.08 0.11
Matches are distributed among these distances:
88 83 0.20
89 2 0.00
93 3 0.01
94 70 0.17
95 1 0.00
96 3 0.01
98 5 0.01
100 50 0.12
101 24 0.06
102 1 0.00
105 2 0.00
106 114 0.27
107 62 0.15
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (94 bp):
CCAATTTCAACTTCACAGCGAAGGATATTAGACTCAAGACAACACAAGTTCAACTTCACGACGAA
GGGACCGCTGGTTGTCAATAAACAACTTC
Found at i:990742 original size:106 final size:104
Alignment explanation
Indices: 990407--990755 Score: 438
Period size: 106 Copynumber: 3.3 Consensus size: 104
990397 AAATAACTTC
* * * * * * *
990407 CCAATTTCAACTTCTCAACGAAGGATCTTAGACCCAAGACAACACAAGCTCAACTTCACGACGAA
1 CCAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAACACAAGTTCAACTTCACAACGAA
* * **
990472 GGGGCGGCTGATTGTC-AGTAA-AATTT--CATTCAGAG
66 GGGACGGCTGGTTGTCAACAAACAATTTCCCATTCAGAG
* * *
990507 TCAATTTCAACTTCATAGCGAAGGATATTAGACTCGAGACAGCACAAGTTCAACTTCACAAACGA
1 CCAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAACACAAGTTCAACTTCAC-AACGA
*
990572 AGGGACGGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAG
65 AGGGACGGCTGGTTGTCAACAAACAATTTCCC-A-TTCAGAG
*
990614 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAA
1 CCAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAACACAAGTTCAACTTCACAACGAA
* *
990679 GGGACGACTGGTTGTCAACAAACAATTTCCCGGTTCCAGAG
66 GGGACGGCTGGTTGTCAACAAACAATTTCCC-ATT-CAGAG
*
990720 CCAATTTCAACTTCA-AGACGAAGGATATTGGACTCG
1 CCAATTTCAACTTCACAG-CGAAGGATATTAGACTCG
990756 GAACAATGCT
Statistics
Matches: 217, Mismatches: 23, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
100 50 0.23
101 19 0.09
102 3 0.01
103 4 0.02
105 5 0.02
106 74 0.34
107 62 0.29
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.22
Consensus pattern (104 bp):
CCAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAACACAAGTTCAACTTCACAACGAA
GGGACGGCTGGTTGTCAACAAACAATTTCCCATTCAGAG
Found at i:991153 original size:84 final size:84
Alignment explanation
Indices: 990925--991196 Score: 332
Period size: 84 Copynumber: 3.2 Consensus size: 84
990915 AAATAAGGAT
* *
990925 TATCTGTCAA-CAAAGACCTTCGAGTTCGACTACGCTCAGCT-CAACGGCACATCATTTACAGCA
1 TATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCA
* * *
990988 TAACTTATGTCGAGAAGGGT
65 TAGCTTAAGTCGAGAAGGGC
* * * * * * *
991008 TATCTACCAACCAAAAAATCCTTCGAGTTCAATTACACTCAGCTCCAAGGTACATCATTTGCAAC
1 TATCTGCCAACC-AAAGA-CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGC
* * *
991073 ATAGCTCAAGGCAAGAAGGGC
64 ATAGCTTAAGTCGAGAAGGGC
* * * *
991094 TATTTGCCAACCAAAGACCTTTGATTTTGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCAT
1 TATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCAT
991159 AGCTTAAGTCGAGAAGGGC
66 AGCTTAAGTCGAGAAGGGC
991178 TATCTGCCAACCAAAGACC
1 TATCTGCCAACCAAAGACC
991197 CGACGAGTTT
Statistics
Matches: 155, Mismatches: 30, Indels: 7
0.81 0.16 0.04
Matches are distributed among these distances:
83 8 0.05
84 75 0.48
85 8 0.05
86 61 0.39
87 3 0.02
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (84 bp):
TATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCAT
AGCTTAAGTCGAGAAGGGC
Found at i:992662 original size:20 final size:22
Alignment explanation
Indices: 992621--992665 Score: 76
Period size: 20 Copynumber: 2.1 Consensus size: 22
992611 ACTAACTTTC
992621 ATTTATCTTTATTATCTATTAT
1 ATTTATCTTTATTATCTATTAT
992643 ATTTAT-TTTATTAT-TATTAT
1 ATTTATCTTTATTATCTATTAT
992663 ATT
1 ATT
992666 AATATTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 9 0.39
21 8 0.35
22 6 0.26
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (22 bp):
ATTTATCTTTATTATCTATTAT
Found at i:992788 original size:6 final size:6
Alignment explanation
Indices: 992777--992802 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
992767 AATCGGGTTC
992777 TTAAAT TTAAAT TTAAAT TTAAAT TT
1 TTAAAT TTAAAT TTAAAT TTAAAT TT
992803 TCACGAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTAAAT
Found at i:993527 original size:12 final size:12
Alignment explanation
Indices: 993510--993543 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
993500 TTTAAAATAA
993510 TAATAATATTAT
1 TAATAATATTAT
993522 TAATAATATTAT
1 TAATAATATTAT
*
993534 CATATAATAT
1 TA-ATAATAT
993544 ATAATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 13 0.65
13 7 0.35
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (12 bp):
TAATAATATTAT
Found at i:993527 original size:15 final size:16
Alignment explanation
Indices: 993506--993573 Score: 61
Period size: 15 Copynumber: 4.2 Consensus size: 16
993496 GGGCTTTAAA
*
993506 ATAATAATAATATTAT
1 ATAATAATAATATCAT
*
993522 -TAATAATATTATCAT
1 ATAATAATAATATCAT
993537 ATAATATATAATAT-AT
1 ATAATA-ATAATATCAT
993553 ATATATATATATATAT-AT
1 ATA-ATA-ATA-ATATCAT
993571 ATA
1 ATA
993574 TATATATATA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
15 13 0.29
16 10 0.22
17 13 0.29
18 9 0.20
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATAATAATATCAT
Found at i:993550 original size:12 final size:12
Alignment explanation
Indices: 993506--993604 Score: 78
Period size: 14 Copynumber: 7.8 Consensus size: 12
993496 GGGCTTTAAA
993506 ATAATAATAATAT
1 ATAAT-ATAATAT
*
993519 -TATTAATAATATT
1 ATAAT-ATAATA-T
*
993532 ATCATATAATAT
1 ATAATATAATAT
993544 ATAATAT-ATAT
1 ATAATATAATAT
993555 AT-ATATATATAT
1 ATAATATA-ATAT
993567 ATATATATATATAT
1 ATA-ATATA-ATAT
993581 ATATATATAGATAT
1 ATA-ATATA-ATAT
993595 ATATATATAA
1 ATA-ATATAA
993605 AAACGTCACT
Statistics
Matches: 75, Mismatches: 5, Indels: 12
0.82 0.05 0.13
Matches are distributed among these distances:
10 4 0.05
11 6 0.08
12 23 0.31
13 8 0.11
14 34 0.45
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (12 bp):
ATAATATAATAT
Found at i:993552 original size:2 final size:2
Alignment explanation
Indices: 993535--993603 Score: 115
Period size: 2 Copynumber: 35.5 Consensus size: 2
993525 TAATATTATC
993535 AT AT A- AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
993575 AT AT AT AT AT AT AT AG AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
993604 AAAACGTCAC
Statistics
Matches: 63, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
1 2 0.03
2 61 0.97
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (2 bp):
AT
Found at i:998513 original size:3 final size:3
Alignment explanation
Indices: 998447--998493 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
998437 AAGGTCACCA
*
998447 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCC TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
998494 AACCATAACC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
TCT
Found at i:1004748 original size:24 final size:20
Alignment explanation
Indices: 1004686--1004763 Score: 122
Period size: 20 Copynumber: 3.9 Consensus size: 20
1004676 GTCGAGGGTT
*
1004686 CATAGGTCCTTCGGGACATA
1 CATAGGTCATTCGGGACATA
1004706 CATAGGTCATTCGGGACATA
1 CATAGGTCATTCGGGACATA
1004726 CATAGGTCATTCGAGG-CATA
1 CATAGGTCATTCG-GGACATA
*
1004746 CATAGGTCCTTCGGGACA
1 CATAGGTCATTCGGGACA
1004764 AATTTCATAT
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 2 0.04
20 50 0.93
21 2 0.04
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (20 bp):
CATAGGTCATTCGGGACATA
Found at i:1005454 original size:21 final size:22
Alignment explanation
Indices: 1005430--1005470 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1005420 TGTAACAAGA
*
1005430 GTATCGGTA-CACTGTAGCAGG
1 GTATCGATACCACTGTAGCAGG
*
1005451 GTATCGATACCCCTGTAGCA
1 GTATCGATACCACTGTAGCA
1005471 TTCTGGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (22 bp):
GTATCGATACCACTGTAGCAGG
Found at i:1005534 original size:12 final size:11
Alignment explanation
Indices: 1005497--1005558 Score: 51
Period size: 10 Copynumber: 5.7 Consensus size: 11
1005487 CATTCGGTAC
*
1005497 TGTTCAT-TAC
1 TGTTCATATAT
1005507 TGTTCACTA-A-
1 TGTTCA-TATAT
1005517 TGTTCATGATAT
1 TGTTCAT-ATAT
1005529 TGTTCAT-TAT
1 TGTTCATATAT
*
1005539 TGTTCACAGTAT
1 TGTTCATA-TAT
1005551 TGTTCATA
1 TGTTCATA
1005559 CCATATAGTA
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
9 1 0.02
10 22 0.51
11 3 0.07
12 17 0.40
ACGTcount: A:0.24, C:0.15, G:0.13, T:0.48
Consensus pattern (11 bp):
TGTTCATATAT
Found at i:1005542 original size:22 final size:22
Alignment explanation
Indices: 1005507--1005557 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
1005497 TGTTCATTAC
* *
1005507 TGTTCACTAATGTTCA-TGATAT
1 TGTTCATTAATGTTCACAG-TAT
*
1005529 TGTTCATTATTGTTCACAGTAT
1 TGTTCATTAATGTTCACAGTAT
1005551 TGTTCAT
1 TGTTCAT
1005558 ACCATATAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 24 0.96
23 1 0.04
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (22 bp):
TGTTCATTAATGTTCACAGTAT
Found at i:1010119 original size:23 final size:23
Alignment explanation
Indices: 1010082--1010155 Score: 66
Period size: 23 Copynumber: 3.4 Consensus size: 23
1010072 TAAGCTACCA
*
1010082 AAAGACAGAGA-AAACGTGTCAC
1 AAAGACATAGATAAACGTGTCAC
** *
1010104 AAAGACATAGATAAACGTACCAT
1 AAAGACATAGATAAACGTGTCAC
* *
1010127 AAAGGCAT--AT-AACATGTCAC
1 AAAGACATAGATAAACGTGTCAC
1010147 AAAGACATA
1 AAAGACATA
1010156 ACTATTCTTA
Statistics
Matches: 40, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
20 13 0.32
21 2 0.05
22 10 0.25
23 15 0.38
ACGTcount: A:0.51, C:0.18, G:0.16, T:0.15
Consensus pattern (23 bp):
AAAGACATAGATAAACGTGTCAC
Found at i:1012735 original size:7 final size:7
Alignment explanation
Indices: 1012723--1012759 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
1012713 TAAATTTTAG
1012723 TTTTGAT
1 TTTTGAT
1012730 TTTTGAT
1 TTTTGAT
1012737 TTTTGAT
1 TTTTGAT
1012744 TTTTGAT
1 TTTTGAT
*
1012751 TTTTTAT
1 TTTTGAT
1012758 TT
1 TT
1012760 CGGGTTTATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.14, C:0.00, G:0.11, T:0.76
Consensus pattern (7 bp):
TTTTGAT
Found at i:1017459 original size:31 final size:31
Alignment explanation
Indices: 1017408--1017485 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
1017398 CTTTTAAAAC
* * * **
1017408 TTGCATTATAATCCCCCAACATTTAGTCTTT
1 TTGCAATATAGTCCCTCAACATTTAGTCCAT
1017439 TTGCAATATAGTCCCTCAACATTTAGTCCAT
1 TTGCAATATAGTCCCTCAACATTTAGTCCAT
*
1017470 TTGCAATATGGTCCCT
1 TTGCAATATAGTCCCT
1017486 GACATAACTG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.26, C:0.26, G:0.10, T:0.38
Consensus pattern (31 bp):
TTGCAATATAGTCCCTCAACATTTAGTCCAT
Found at i:1017663 original size:2 final size:2
Alignment explanation
Indices: 1017652--1017723 Score: 137
Period size: 2 Copynumber: 36.5 Consensus size: 2
1017642 AAAGCAGCTG
1017652 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1017693 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1017724 GGGTAAACTA
Statistics
Matches: 69, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 68 0.99
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1019461 original size:31 final size:31
Alignment explanation
Indices: 1019416--1019493 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
1019406 CTTTTAAAAC
** * *
1019416 TTGCAATACAGTCCCCCAATATTTTGTCCAT
1 TTGCAATATGGTCCCCCAACATTTAGTCCAT
* **
1019447 TTGCAATATGGTCCCTCAACATTTAGTCTGT
1 TTGCAATATGGTCCCCCAACATTTAGTCCAT
*
1019478 TTACAATATGGTCCCC
1 TTGCAATATGGTCCCC
1019494 GACATAACTG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.24, C:0.27, G:0.13, T:0.36
Consensus pattern (31 bp):
TTGCAATATGGTCCCCCAACATTTAGTCCAT
Found at i:1022346 original size:21 final size:23
Alignment explanation
Indices: 1022322--1022370 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
1022312 TGAACATCTT
*
1022322 AATAATTGTTTA-TATTTT-TAA
1 AATAATTGTTTACTATTTTAGAA
* *
1022343 AATATTTTTTTACTATTTTAGAA
1 AATAATTGTTTACTATTTTAGAA
1022366 AATAA
1 AATAA
1022371 ATAAGTTATT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 10 0.45
22 6 0.27
23 6 0.27
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (23 bp):
AATAATTGTTTACTATTTTAGAA
Found at i:1031396 original size:59 final size:59
Alignment explanation
Indices: 1031330--1031458 Score: 258
Period size: 59 Copynumber: 2.2 Consensus size: 59
1031320 ATTCGAACAG
1031330 ACTCGACTCGAGCTCGAGTTCTACTCGAGTTCTTAATGAGCTGAAACAAACTACTTGAT
1 ACTCGACTCGAGCTCGAGTTCTACTCGAGTTCTTAATGAGCTGAAACAAACTACTTGAT
1031389 ACTCGACTCGAGCTCGAGTTCTACTCGAGTTCTTAATGAGCTGAAACAAACTACTTGAT
1 ACTCGACTCGAGCTCGAGTTCTACTCGAGTTCTTAATGAGCTGAAACAAACTACTTGAT
1031448 ACTCGACTCGA
1 ACTCGACTCGA
1031459 AAAGCTCGTA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 70 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (59 bp):
ACTCGACTCGAGCTCGAGTTCTACTCGAGTTCTTAATGAGCTGAAACAAACTACTTGAT
Found at i:1034689 original size:23 final size:21
Alignment explanation
Indices: 1034637--1034689 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 21
1034627 AATTCTACAT
1034637 ATTTAA-TTATATTATTTTTA
1 ATTTAATTTATATTATTTTTA
*
1034657 AATTATATTTATTATTATATTTTA
1 ATTTA-ATTTA-TATTAT-TTTTA
1034681 ATTTAATTT
1 ATTTAATTT
1034690 TAATTACTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 4 0.15
21 1 0.04
22 3 0.11
23 10 0.37
24 9 0.33
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
ATTTAATTTATATTATTTTTA
Found at i:1036826 original size:5 final size:6
Alignment explanation
Indices: 1036810--1036835 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
1036800 CTCTTTTTAC
1036810 ATTTTT ATTTTT ATTTTT ATTTTT AT
1 ATTTTT ATTTTT ATTTTT ATTTTT AT
1036836 AATGTGCTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:1037500 original size:16 final size:16
Alignment explanation
Indices: 1037479--1037509 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1037469 TCCTAAAATC
1037479 TCTCTCTCTCTCACAG
1 TCTCTCTCTCTCACAG
1037495 TCTCTCTCTCTCACA
1 TCTCTCTCTCTCACA
1037510 CACACATGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.45, G:0.03, T:0.39
Consensus pattern (16 bp):
TCTCTCTCTCTCACAG
Found at i:1037500 original size:18 final size:18
Alignment explanation
Indices: 1037477--1037511 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1037467 TTTCCTAAAA
*
1037477 TCTCTCTCTCTCTCACAG
1 TCTCTCTCTCTCACACAG
1037495 TCTCTCTCTCTCACACA
1 TCTCTCTCTCTCACACA
1037512 CACATGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.46, G:0.03, T:0.37
Consensus pattern (18 bp):
TCTCTCTCTCTCACACAG
Found at i:1041454 original size:14 final size:15
Alignment explanation
Indices: 1041426--1041458 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
1041416 GAACTCTTTG
1041426 TTATTTTATTTTTAC
1 TTATTTTATTTTTAC
1041441 TTATTTTA-TTTTAC
1 TTATTTTATTTTTAC
1041455 TTAT
1 TTAT
1041459 CTTTTATCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (15 bp):
TTATTTTATTTTTAC
Found at i:1044491 original size:82 final size:82
Alignment explanation
Indices: 1044400--1044569 Score: 297
Period size: 82 Copynumber: 2.1 Consensus size: 82
1044390 GGCCTTTTTT
1044400 TTTTATAGAATTCGGTCAAAAGAAA-ATAACAATAAATGCAAAATTTAAATACAAACCAATCACA
1 TTTTATAGAATTCGGTCAAAA-AAATATAACAATAAATGCAAAATTTAAATACAAACCAATCACA
1044464 ATCACCAAACCAAAGCTC
65 ATCACCAAACCAAAGCTC
* *
1044482 TTTTATAGAATTTGGTCAAAAAAATATAATAATAAATGCAAAATTTAAATACAAACCAATCACAA
1 TTTTATAGAATTCGGTCAAAAAAATATAACAATAAATGCAAAATTTAAATACAAACCAATCACAA
1044547 TCACCAAACCAAAGCTC
66 TCACCAAACCAAAGCTC
1044564 TATTTA
1 T-TTTA
1044570 CTATCGAACA
Statistics
Matches: 84, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
81 3 0.04
82 77 0.92
83 4 0.05
ACGTcount: A:0.51, C:0.18, G:0.06, T:0.25
Consensus pattern (82 bp):
TTTTATAGAATTCGGTCAAAAAAATATAACAATAAATGCAAAATTTAAATACAAACCAATCACAA
TCACCAAACCAAAGCTC
Found at i:1053892 original size:20 final size:20
Alignment explanation
Indices: 1053851--1053893 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1053841 GAGATGCGTG
* *
1053851 GAACCTTATAGAAGAGTGTA
1 GAACCTTATAGAAGAATATA
*
1053871 GAACCTTATGGAAGAATATA
1 GAACCTTATAGAAGAATATA
1053891 GAA
1 GAA
1053894 TGGAGTGGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.09, G:0.23, T:0.23
Consensus pattern (20 bp):
GAACCTTATAGAAGAATATA
Found at i:1056565 original size:16 final size:16
Alignment explanation
Indices: 1056546--1056579 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
1056536 GATTGATAAG
1056546 CAACAAGAACACCGAA
1 CAACAAGAACACCGAA
1056562 CAACAAGAACACCGAA
1 CAACAAGAACACCGAA
1056578 CA
1 CA
1056580 TACTCTAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.32, G:0.12, T:0.00
Consensus pattern (16 bp):
CAACAAGAACACCGAA
Found at i:1069976 original size:1 final size:1
Alignment explanation
Indices: 1069970--1069994 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
1069960 GCTTAGGGAG
1069970 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
1069995 AAATTGAGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:1072067 original size:21 final size:21
Alignment explanation
Indices: 1072043--1072084 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1072033 CTTTGTTTCT
1072043 TTCAAATTATTTGAAGAGAAA
1 TTCAAATTATTTGAAGAGAAA
1072064 TTCAAATTATTTGAAGAGAAA
1 TTCAAATTATTTGAAGAGAAA
1072085 GGAAACAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.33
Consensus pattern (21 bp):
TTCAAATTATTTGAAGAGAAA
Found at i:1084878 original size:45 final size:45
Alignment explanation
Indices: 1084821--1084926 Score: 135
Period size: 45 Copynumber: 2.4 Consensus size: 45
1084811 GATGCATTGG
** *
1084821 TAGTGCATCGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAAT
1 TAGTGCATCGATGCATC-CCATTAATAAGAAA-ACATCGAATGCAAT
* *
1084866 TTGTGCATCGATGCATCCCATTAATAAGGAAACATCGAATGCAAT
1 TAGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATGCAAT
1084911 TAGTGCATCGATGCAT
1 TAGTGCATCGATGCAT
1084927 AAGGCATGCA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
45 48 0.91
46 5 0.09
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (45 bp):
TAGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATGCAAT
Found at i:1084937 original size:64 final size:64
Alignment explanation
Indices: 1084868--1085009 Score: 173
Period size: 64 Copynumber: 2.2 Consensus size: 64
1084858 AATGCAATTT
* * *
1084868 GTGCATCGATGCATCCCATTAATAAGGA-AACATCGAATGCA-ATTAGTGCATCGATGCATAAGG
1 GTGCATCGATGCATCCCAGTAATAA-GACAACATCGAATACATATTA-TGCACCGATGCATAA-G
1084931 CA
63 CA
* * * *
1084933 -TGCATCGATGCATCCCAGTAATAATACAACATCGAATACATTTTATGCACCGATGCATCAGTA
1 GTGCATCGATGCATCCCAGTAATAAGACAACATCGAATACATATTATGCACCGATGCATAAGCA
1084996 GTGCATCGATGCAT
1 GTGCATCGATGCAT
1085010 ACCTTCATTA
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
63 3 0.04
64 61 0.91
65 3 0.04
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (64 bp):
GTGCATCGATGCATCCCAGTAATAAGACAACATCGAATACATATTATGCACCGATGCATAAGCA
Found at i:1085883 original size:103 final size:103
Alignment explanation
Indices: 1085759--1085981 Score: 437
Period size: 103 Copynumber: 2.2 Consensus size: 103
1085749 GTCGAGGGTC
1085759 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1085824 TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
1085862 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1085927 TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
*
1085965 TATTTGGTCCTTCGGGA
1 TATGTGGTCCTTCGGGA
1085982 CATTATTATA
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 119 1.00
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
Found at i:1086023 original size:23 final size:23
Alignment explanation
Indices: 1085993--1086055 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
1085983 ATTATTATAT
1085993 GGCACTCCGGTGCAATTCTACGC
1 GGCACTCCGGTGCAATTCTACGC
*
1086016 GGCACTCCGGTGCAATTCTACGT
1 GGCACTCCGGTGCAATTCTACGC
*
1086039 GGCACTTCGGTGCAATT
1 GGCACTCCGGTGCAATT
1086056 ATATGAGCTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.17, C:0.30, G:0.27, T:0.25
Consensus pattern (23 bp):
GGCACTCCGGTGCAATTCTACGC
Found at i:1090598 original size:45 final size:45
Alignment explanation
Indices: 1090546--1090651 Score: 135
Period size: 45 Copynumber: 2.4 Consensus size: 45
1090536 GATGCATTGG
** *
1090546 TAGTGCATCGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAAT
1 TAGTGCATCGATGCATC-CCATTAATAAGAAA-ACATCGAATGCAAT
* *
1090591 TTGTGCATCGATGCATCCCATTAATAAGGAAACATCGAATGCAAT
1 TAGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATGCAAT
1090636 TAGTGCATCGATGCAT
1 TAGTGCATCGATGCAT
1090652 AAGGCATGCA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
45 48 0.91
46 5 0.09
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (45 bp):
TAGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATGCAAT
Found at i:1090662 original size:64 final size:64
Alignment explanation
Indices: 1090593--1090734 Score: 173
Period size: 64 Copynumber: 2.2 Consensus size: 64
1090583 AATGCAATTT
* * *
1090593 GTGCATCGATGCATCCCATTAATAAGGA-AACATCGAATGCA-ATTAGTGCATCGATGCATAAGG
1 GTGCATCGATGCATCCCAGTAATAA-GACAACATCGAATACATATTA-TGCACCGATGCATAA-G
1090656 CA
63 CA
* * * *
1090658 -TGCATCGATGCATCCCAGTAATAATACAACATCGAATACATTTTATGCACCGATGCATCAGTA
1 GTGCATCGATGCATCCCAGTAATAAGACAACATCGAATACATATTATGCACCGATGCATAAGCA
1090721 GTGCATCGATGCAT
1 GTGCATCGATGCAT
1090735 ACCTTCATTA
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
63 3 0.04
64 61 0.91
65 3 0.04
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (64 bp):
GTGCATCGATGCATCCCAGTAATAAGACAACATCGAATACATATTATGCACCGATGCATAAGCA
Found at i:1091610 original size:103 final size:103
Alignment explanation
Indices: 1091486--1091708 Score: 437
Period size: 103 Copynumber: 2.2 Consensus size: 103
1091476 GTCGAGGGTC
1091486 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1091551 TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
1091589 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1091654 TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
*
1091692 TATGTGGTCATTCGGGA
1 TATGTGGTCCTTCGGGA
1091709 CATTATTATA
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 119 1.00
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
Found at i:1091759 original size:23 final size:23
Alignment explanation
Indices: 1091720--1091782 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
1091710 ATTATTATAT
* *
1091720 GGCACTACGGTGCAATTCTACGC
1 GGCACTCCAGTGCAATTCTACGC
* *
1091743 GGTACTCCAGTGCAATTCTACGT
1 GGCACTCCAGTGCAATTCTACGC
* *
1091766 GGCACTTCGGTGCAATT
1 GGCACTCCAGTGCAATT
1091783 ATATGAGCTG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (23 bp):
GGCACTCCAGTGCAATTCTACGC
Found at i:1095225 original size:30 final size:29
Alignment explanation
Indices: 1095186--1095244 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
1095176 GATAATTTAC
* *
1095186 ATGAACTACGTGATTAAATGTATATGTGA
1 ATGAACTACGAGATTAAATGAATATGTGA
* *
1095215 ATGAAGCTACGAGTTTATATGAATATGTGA
1 ATGAA-CTACGAGATTAAATGAATATGTGA
1095245 TATGTTTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (29 bp):
ATGAACTACGAGATTAAATGAATATGTGA
Found at i:1095511 original size:23 final size:23
Alignment explanation
Indices: 1095475--1095565 Score: 119
Period size: 23 Copynumber: 4.0 Consensus size: 23
1095465 TATCTTATAT
* *
1095475 GGCACTTCGTTGCATTTCTACGC
1 GGCACTTAGGTGCATTTCTACGC
1095498 GGCACTTAGGTGCATTTCTACGC
1 GGCACTTAGGTGCATTTCTACGC
* *
1095521 GGCACTTAGGTGCAATTCTACGT
1 GGCACTTAGGTGCATTTCTACGC
* * *
1095544 GGCACTTCGGTTCATTTATACG
1 GGCACTTAGGTGCATTTCTACG
1095566 AGCTGTGGTG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 60 1.00
ACGTcount: A:0.18, C:0.25, G:0.24, T:0.33
Consensus pattern (23 bp):
GGCACTTAGGTGCATTTCTACGC
Found at i:1100756 original size:23 final size:23
Alignment explanation
Indices: 1100718--1100808 Score: 110
Period size: 23 Copynumber: 4.0 Consensus size: 23
1100708 CATCTTATAT
* *
1100718 GGCACTTCGTTGCATTTCTACGC
1 GGCACTTAGGTGCATTTCTACGC
*
1100741 GGCACTTAGGTTCATTTCTACGC
1 GGCACTTAGGTGCATTTCTACGC
* *
1100764 GGCACTTAGGTGCAATTCTACGT
1 GGCACTTAGGTGCATTTCTACGC
* * *
1100787 GACACTTCGGTGCATTTATACG
1 GGCACTTAGGTGCATTTCTACG
1100809 AGCTGTGGTG
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 58 1.00
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (23 bp):
GGCACTTAGGTGCATTTCTACGC
Found at i:1101173 original size:2 final size:2
Alignment explanation
Indices: 1101160--1101205 Score: 83
Period size: 2 Copynumber: 22.5 Consensus size: 2
1101150 AATATGTATG
1101160 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1101203 TA T
1 TA T
1101206 TTATGTTTGG
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 41 0.95
3 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1103744 original size:119 final size:119
Alignment explanation
Indices: 1103607--1103844 Score: 476
Period size: 119 Copynumber: 2.0 Consensus size: 119
1103597 ATTGATTTTT
1103607 TTTTTTTTTTTTTTACAAATTCAAGTGTTTAAATTTAAAACGATTGAATATTACCATAAATCAAT
1 TTTTTTTTTTTTTTACAAATTCAAGTGTTTAAATTTAAAACGATTGAATATTACCATAAATCAAT
1103672 GAAAGTTGCTCTCAAGCTTAAAACTTGGTGGGATCAATCTGTTTCAACTAACAG
66 GAAAGTTGCTCTCAAGCTTAAAACTTGGTGGGATCAATCTGTTTCAACTAACAG
1103726 TTTTTTTTTTTTTTACAAATTCAAGTGTTTAAATTTAAAACGATTGAATATTACCATAAATCAAT
1 TTTTTTTTTTTTTTACAAATTCAAGTGTTTAAATTTAAAACGATTGAATATTACCATAAATCAAT
1103791 GAAAGTTGCTCTCAAGCTTAAAACTTGGTGGGATCAATCTGTTTCAACTAACAG
66 GAAAGTTGCTCTCAAGCTTAAAACTTGGTGGGATCAATCTGTTTCAACTAACAG
1103845 ATTGTGAGAC
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
119 119 1.00
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.39
Consensus pattern (119 bp):
TTTTTTTTTTTTTTACAAATTCAAGTGTTTAAATTTAAAACGATTGAATATTACCATAAATCAAT
GAAAGTTGCTCTCAAGCTTAAAACTTGGTGGGATCAATCTGTTTCAACTAACAG
Found at i:1105288 original size:6 final size:6
Alignment explanation
Indices: 1105270--1105305 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
1105260 GTGGTTCATG
1105270 CAAAAT CCAAAAT CAAAAT CCAAAAT CAAAAT CAAA
1 CAAAAT -CAAAAT CAAAAT -CAAAAT CAAAAT CAAA
1105306 TACCTGTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 16 0.57
7 12 0.43
ACGTcount: A:0.64, C:0.22, G:0.00, T:0.14
Consensus pattern (6 bp):
CAAAAT
Found at i:1105288 original size:13 final size:13
Alignment explanation
Indices: 1105270--1105302 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
1105260 GTGGTTCATG
1105270 CAAAATCCAAAAT
1 CAAAATCCAAAAT
1105283 CAAAATCCAAAAT
1 CAAAATCCAAAAT
1105296 CAAAATC
1 CAAAATC
1105303 AAATACCTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.61, C:0.24, G:0.00, T:0.15
Consensus pattern (13 bp):
CAAAATCCAAAAT
Found at i:1120752 original size:47 final size:47
Alignment explanation
Indices: 1120683--1120792 Score: 211
Period size: 47 Copynumber: 2.3 Consensus size: 47
1120673 TTTTTATTCA
1120683 TGTATTACATTATCAGTCATAATATAGGGTTCCAGAAGATAATAATT
1 TGTATTACATTATCAGTCATAATATAGGGTTCCAGAAGATAATAATT
*
1120730 TGTATTACATTATCAGTCATAATATAGGGTTCTAGAAGATAATAATT
1 TGTATTACATTATCAGTCATAATATAGGGTTCCAGAAGATAATAATT
1120777 TGTATTACATTATCAG
1 TGTATTACATTATCAG
1120793 ACAGTAAAAC
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 62 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (47 bp):
TGTATTACATTATCAGTCATAATATAGGGTTCCAGAAGATAATAATT
Found at i:1125149 original size:234 final size:234
Alignment explanation
Indices: 1124740--1125208 Score: 938
Period size: 234 Copynumber: 2.0 Consensus size: 234
1124730 TTTTTCTTCG
1124740 ATGCACAAACAGCAAAATATTGAGAGAACATAGAAATGCAATAGTCAAACAATGTTATATCAACA
1 ATGCACAAACAGCAAAATATTGAGAGAACATAGAAATGCAATAGTCAAACAATGTTATATCAACA
1124805 AACAGACTCAAAGACTCATGTGGAGCCATTCCCACTTCACAATGTCTAATTTGTAACTAAAACGA
66 AACAGACTCAAAGACTCATGTGGAGCCATTCCCACTTCACAATGTCTAATTTGTAACTAAAACGA
1124870 GAGTTTACATTTCAATTTTTCTCTTTAATGCACAAACAGCTTACTTTCAAGAGAACATAGATATA
131 GAGTTTACATTTCAATTTTTCTCTTTAATGCACAAACAGCTTACTTTCAAGAGAACATAGATATA
1124935 CAACATACACAAAAATATTGCATCAACAACAGTAACTCT
196 CAACATACACAAAAATATTGCATCAACAACAGTAACTCT
1124974 ATGCACAAACAGCAAAATATTGAGAGAACATAGAAATGCAATAGTCAAACAATGTTATATCAACA
1 ATGCACAAACAGCAAAATATTGAGAGAACATAGAAATGCAATAGTCAAACAATGTTATATCAACA
1125039 AACAGACTCAAAGACTCATGTGGAGCCATTCCCACTTCACAATGTCTAATTTGTAACTAAAACGA
66 AACAGACTCAAAGACTCATGTGGAGCCATTCCCACTTCACAATGTCTAATTTGTAACTAAAACGA
1125104 GAGTTTACATTTCAATTTTTCTCTTTAATGCACAAACAGCTTACTTTCAAGAGAACATAGATATA
131 GAGTTTACATTTCAATTTTTCTCTTTAATGCACAAACAGCTTACTTTCAAGAGAACATAGATATA
1125169 CAACATACACAAAAATATTGCATCAACAACAGTAACTCT
196 CAACATACACAAAAATATTGCATCAACAACAGTAACTCT
1125208 A
1 A
1125209 GTACATCCTA
Statistics
Matches: 235, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
234 235 1.00
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (234 bp):
ATGCACAAACAGCAAAATATTGAGAGAACATAGAAATGCAATAGTCAAACAATGTTATATCAACA
AACAGACTCAAAGACTCATGTGGAGCCATTCCCACTTCACAATGTCTAATTTGTAACTAAAACGA
GAGTTTACATTTCAATTTTTCTCTTTAATGCACAAACAGCTTACTTTCAAGAGAACATAGATATA
CAACATACACAAAAATATTGCATCAACAACAGTAACTCT
Found at i:1131577 original size:28 final size:29
Alignment explanation
Indices: 1131535--1131606 Score: 83
Period size: 30 Copynumber: 2.5 Consensus size: 29
1131525 TTATGATAAA
** *
1131535 AATCAATGTGACCACCGAAC-TTTAATTG
1 AATCAATAAGACCACCCAACATTTAATTG
* *
1131563 AATTAATCAGACCACCCAACTATTTAATTG
1 AATCAATAAGACCACCCAAC-ATTTAATTG
1131593 AATCAATAAGACCA
1 AATCAATAAGACCA
1131607 TCGGCCGTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
28 16 0.44
30 20 0.56
ACGTcount: A:0.42, C:0.22, G:0.10, T:0.26
Consensus pattern (29 bp):
AATCAATAAGACCACCCAACATTTAATTG
Found at i:1132266 original size:70 final size:69
Alignment explanation
Indices: 1132170--1132318 Score: 174
Period size: 70 Copynumber: 2.1 Consensus size: 69
1132160 ATTTGTTTGG
* * *
1132170 TTCGATTAATAATTTTTAAATAAATTTCAGTTCGATTAATGGTTAAACAAAAACAATTCGGTTAA
1 TTCGGTTAATAATTTTTAAATAAATTTCAGTTCGATTAACGATTAAACAAAAA-AATTCGGTTAA
1132235 TTCGA
65 TTCGA
* * ** * * *
1132240 TTTGGTTAATAATTTTCT-AATTAATTTTGGTTCGATTAACGATTAAAGAAAAAAATTTGGTTCA
1 TTCGGTTAATAATTTT-TAAATAAATTTCAGTTCGATTAACGATTAAACAAAAAAATTCGGTTAA
*
1132304 TTCGG
65 TTCGA
1132309 TTCGGTTAAT
1 TTCGGTTAAT
1132319 CGAATCAAAA
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
69 22 0.33
70 43 0.65
71 1 0.02
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.42
Consensus pattern (69 bp):
TTCGGTTAATAATTTTTAAATAAATTTCAGTTCGATTAACGATTAAACAAAAAAATTCGGTTAAT
TCGA
Found at i:1132549 original size:138 final size:138
Alignment explanation
Indices: 1132335--1132694 Score: 524
Period size: 138 Copynumber: 2.6 Consensus size: 138
1132325 AAAATTTATT
* *
1132335 TAAAAATTATTAACCGAACCGAATTAACCGGTTTTTTTTTTAAATTATTAACCAAATTAATCGAA
1 TAAAAATTATTAACCGAACCGAATTAACC-G--ATTTTTTAAAATTATTAACCAAATTAATCGAA
1132400 GCAAAAATTCGGTTAATTC-GTTTCGGTTAATCGAACAAAAATTTATTTGAAAATTATTAACCAA
63 GCAAAAATTCGGTTAATTCAG-TTCGGTTAATCGAACAAAAATTTATTTGAAAATTATTAACCAA
*
1132464 ACCGAATTAATA
127 ACAGAATTAATA
* *
1132476 TAAAAATTATTAACCGAACCGAATTAACCGATTTTTTAAAATTATTAACCAAACTAATTGAAGCA
1 TAAAAATTATTAACCGAACCGAATTAACCGATTTTTTAAAATTATTAACCAAATTAATCGAAGCA
* **
1132541 AAAATTCGGTTAATTCAGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAACTGAACAG
66 AAAATTCGGTTAATTCAGTTCGGTTAATCGAACAAAAATTTATTTGAAAATTATTAACCAAACAG
*
1132606 AATTAATT
131 AATTAATA
* * ** * *
1132614 TAAAAATTATTAACCAAACTGAATTAACTAATTTTTTTAAAATTATTAACCGAATTAATCAAAGC
1 TAAAAATTATTAACCGAACCGAATTAACCGA-TTTTTTAAAATTATTAACCAAATTAATCGAAGC
*
1132679 AAAGATTCGGTTAATT
65 AAAAATTCGGTTAATT
1132695 AAACCAAAAT
Statistics
Matches: 199, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
138 124 0.62
139 45 0.23
140 1 0.01
141 29 0.15
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.34
Consensus pattern (138 bp):
TAAAAATTATTAACCGAACCGAATTAACCGATTTTTTAAAATTATTAACCAAATTAATCGAAGCA
AAAATTCGGTTAATTCAGTTCGGTTAATCGAACAAAAATTTATTTGAAAATTATTAACCAAACAG
AATTAATA
Found at i:1132637 original size:29 final size:29
Alignment explanation
Indices: 1132577--1132640 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
1132567 ATCGAACCAA
* * **
1132577 AATTTATTTGAAAATTATTAACTGAACAG
1 AATTAATTTAAAAATTATTAACCAAACAG
*
1132606 AATTAATTTAAAAATTATTAACCAAACTG
1 AATTAATTTAAAAATTATTAACCAAACAG
1132635 AATTAA
1 AATTAA
1132641 CTAATTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.36
Consensus pattern (29 bp):
AATTAATTTAAAAATTATTAACCAAACAG
Found at i:1133290 original size:30 final size:29
Alignment explanation
Indices: 1133255--1133317 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 29
1133245 TTAATGGTCA
*
1133255 GTGGTCTGATTGATTCAATTAAATAGTTGG
1 GTGGTCTGATTGATTCAATTAAA-AGTTCG
*
1133285 GTGGTCTGATTGATTCAATTGAAAGTTCG
1 GTGGTCTGATTGATTCAATTAAAAGTTCG
1133314 GTGG
1 GTGG
1133318 ACACATTGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 9 0.29
30 22 0.71
ACGTcount: A:0.24, C:0.08, G:0.30, T:0.38
Consensus pattern (29 bp):
GTGGTCTGATTGATTCAATTAAAAGTTCG
Found at i:1133325 original size:29 final size:30
Alignment explanation
Indices: 1133263--1133328 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
1133253 CAGTGGTCTG
* * **
1133263 ATTGATTCAATTAAATAGTTGGGTGGTCTG
1 ATTGATTCAATTAAATAGTTCGGTGGACAC
*
1133293 ATTGATTCAATTGAA-AGTTCGGTGGACAC
1 ATTGATTCAATTAAATAGTTCGGTGGACAC
1133322 ATTGATT
1 ATTGATT
1133329 TTTTATCATA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 17 0.55
30 14 0.45
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (30 bp):
ATTGATTCAATTAAATAGTTCGGTGGACAC
Found at i:1134080 original size:35 final size:35
Alignment explanation
Indices: 1134007--1134081 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
1133997 CGTCACTAAC
**
1134007 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGGTA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
*
1134042 AGTAAGGCCCTGAGCACACAGCCGAGGAACCTCCA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
1134077 AGTAA
1 AGTAA
1134082 TCTTCCTCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.33, C:0.29, G:0.28, T:0.09
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
Found at i:1134219 original size:23 final size:23
Alignment explanation
Indices: 1134159--1134233 Score: 105
Period size: 24 Copynumber: 3.2 Consensus size: 23
1134149 CATAATTCAA
*
1134159 GTCAAGTATCATATCAGAATCCAG
1 GTCAA-TATCAGATCAGAATCCAG
* *
1134183 GTCATGTATCAGATCAGAATCCAT
1 GTCA-ATATCAGATCAGAATCCAG
1134207 GTCAATATCAGATCAGAATCCAG
1 GTCAATATCAGATCAGAATCCAG
1134230 GTCA
1 GTCA
1134234 GGATCATAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
23 21 0.47
24 24 0.53
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.25
Consensus pattern (23 bp):
GTCAATATCAGATCAGAATCCAG
Found at i:1134239 original size:23 final size:23
Alignment explanation
Indices: 1134163--1134248 Score: 109
Period size: 23 Copynumber: 3.7 Consensus size: 23
1134153 ATTCAAGTCA
*
1134163 AGTATCATATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
*
1134186 ATGTATCAGATCAGAATCCATGTC
1 A-GTATCAGATCAGAATCCAGGTC
*
1134210 AATATCAGATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
* * *
1134233 AGGATCATAACAGAAT
1 AGTATCAGATCAGAAT
1134249 TCAAGTCGGA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
23 33 0.61
24 21 0.39
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.24
Consensus pattern (23 bp):
AGTATCAGATCAGAATCCAGGTC
Found at i:1134266 original size:47 final size:47
Alignment explanation
Indices: 1134142--1134255 Score: 131
Period size: 47 Copynumber: 2.4 Consensus size: 47
1134132 TATATCAAAA
* * * * *
1134142 ATCAAAACATAATTCAAGTCAAGTATCATATCAGAATCCAGGTCATGT
1 ATCAGAACAGAATCCAAGTCAA-TATCAGATCAGAATCCAGGTCATGG
* *
1134190 ATCAGATCAGAATCCATGTCAATATCAGATCAGAATCCAGGTCA-GG
1 ATCAGAACAGAATCCAAGTCAATATCAGATCAGAATCCAGGTCATGG
* *
1134236 ATCATAACAGAATTCAAGTC
1 ATCAGAACAGAATCCAAGTC
1134256 GGAAATCAGA
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
46 17 0.31
47 21 0.38
48 17 0.31
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (47 bp):
ATCAGAACAGAATCCAAGTCAATATCAGATCAGAATCCAGGTCATGG
Found at i:1135408 original size:18 final size:18
Alignment explanation
Indices: 1135387--1135422 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1135377 CTTCCATCCG
*
1135387 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
1135405 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
1135423 GTCCTTTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:1136764 original size:13 final size:13
Alignment explanation
Indices: 1136759--1136804 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
1136749 GTCAACGGGT
* *
1136759 CGGGTCGAGTCAA
1 CGGGTCGGGTAAA
*
1136772 CTGGTCGGGTAAA
1 CGGGTCGGGTAAA
1136785 CGGGTCGGGTAAA
1 CGGGTCGGGTAAA
1136798 CGGGTCG
1 CGGGTCG
1136805 TGTCGGGTCG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.20, C:0.20, G:0.43, T:0.17
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:1137602 original size:2 final size:2
Alignment explanation
Indices: 1137595--1137658 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
1137585 ACCCAAAATT
1137595 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1137637 TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
1137659 GCCTCACTTG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1137879 original size:2 final size:2
Alignment explanation
Indices: 1137872--1137900 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1137862 AATTTAGAAT
1137872 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1137901 TAGAGCCTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1138060 original size:246 final size:247
Alignment explanation
Indices: 1137625--1138119 Score: 911
Period size: 246 Copynumber: 2.0 Consensus size: 247
1137615 TATATATATA
* *
1137625 TATATATATATATATATATATATATATATATATAGCCTCACTTGTTATTTACTTAATCTCATCTA
1 TATATATATATATATATATATATATATATATAGAGCCTCACTTGTTATTTACTTAATCTCATATA
1137690 ATATTCTAAGTTCGAATAATTAAATTTATGCGTATGTTGTTAATGACTAAATAAGATTAAGAACA
66 ATATTCTAAGTTCGAATAATTAAATTTATGCGTATGTTGTTAATGACTAAATAAGATTAAGAACA
*
1137755 TATATTAATTTATAATAACCCAAAGTGTTCAAAGGTATATCTACTATAAGATTTAGGATTCTTAT
131 TATATTAATTTATAATAACACAAAGTGTTCAAAGGTATATCTACTATAAGATTTAGGATTCTTAT
1137820 TTATAAATTATTATTTTTGAACAATACATAAATTATAGTTAGAATTTAGAAT
196 TTATAAATTATTATTTTTGAACAATACATAAATTATAGTTAGAATTTAGAAT
*
1137872 TATATATATATATATATATATATATATAT-TAGAGCCTCACTTGTTATTTACTTGATCTCATATA
1 TATATATATATATATATATATATATATATATAGAGCCTCACTTGTTATTTACTTAATCTCATATA
*
1137936 ATATTCTAAGTTCGAATAATTAAATTTATGTGTATGTTGTTAATGACTAAATAAGATTAAGAACA
66 ATATTCTAAGTTCGAATAATTAAATTTATGCGTATGTTGTTAATGACTAAATAAGATTAAGAACA
*
1138001 TATATTAATTTATAATAACACAAAGTGTTCAAAGGTATATCTACTATAAGATTTAGGATTTTTAT
131 TATATTAATTTATAATAACACAAAGTGTTCAAAGGTATATCTACTATAAGATTTAGGATTCTTAT
* *
1138066 TTATAAATTATTATTTTTGAACAATACATAAATTATATTTAGAATTTATAAT
196 TTATAAATTATTATTTTTGAACAATACATAAATTATAGTTAGAATTTAGAAT
1138118 TA
1 TA
1138120 AGATTAAAGA
Statistics
Matches: 240, Mismatches: 8, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
246 211 0.88
247 29 0.12
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.43
Consensus pattern (247 bp):
TATATATATATATATATATATATATATATATAGAGCCTCACTTGTTATTTACTTAATCTCATATA
ATATTCTAAGTTCGAATAATTAAATTTATGCGTATGTTGTTAATGACTAAATAAGATTAAGAACA
TATATTAATTTATAATAACACAAAGTGTTCAAAGGTATATCTACTATAAGATTTAGGATTCTTAT
TTATAAATTATTATTTTTGAACAATACATAAATTATAGTTAGAATTTAGAAT
Found at i:1141206 original size:2 final size:2
Alignment explanation
Indices: 1141199--1141230 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1141189 CATAAGTAGA
1141199 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1141231 GTTTAAATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1143415 original size:3 final size:3
Alignment explanation
Indices: 1143402--1143479 Score: 86
Period size: 3 Copynumber: 26.3 Consensus size: 3
1143392 AATATTAAAA
* * * * * * *
1143402 ATT AAT ATT ATT A-T ATT ATA ATT ATA ATT ATA ATA ATA ATA ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1143449 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1143480 AGTGTGTTTA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
2 2 0.03
3 64 0.97
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (3 bp):
ATT
Found at i:1144108 original size:3 final size:3
Alignment explanation
Indices: 1144100--1144125 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1144090 TTTGAATCTG
1144100 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
1144126 TTGTTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1146268 original size:22 final size:22
Alignment explanation
Indices: 1146243--1146284 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
1146233 TATGAAATTT
*
1146243 TGTCCCGAAGGACCTGTGAAGG
1 TGTCCCGAAGGACCTATGAAGG
1146265 TGTCCCGAAGGACCTATGAA
1 TGTCCCGAAGGACCTATGAA
1146285 ACCCTCGACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.24, G:0.31, T:0.19
Consensus pattern (22 bp):
TGTCCCGAAGGACCTATGAAGG
Found at i:1151309 original size:13 final size:13
Alignment explanation
Indices: 1151291--1151320 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1151281 TACAAGAACT
1151291 GATAAAGATTTGG
1 GATAAAGATTTGG
1151304 GATAAAGATTTGG
1 GATAAAGATTTGG
1151317 GATA
1 GATA
1151321 TTTATAGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (13 bp):
GATAAAGATTTGG
Found at i:1157034 original size:31 final size:31
Alignment explanation
Indices: 1156996--1157058 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
1156986 AACATATATC
*
1156996 ATGTGTAAATAAATGGAATAAAGAAAAGGTT
1 ATGTGTAAATAAATGAAATAAAGAAAAGGTT
*
1157027 ATGTGTAAATAAATGAAATAAAGAAAATGTT
1 ATGTGTAAATAAATGAAATAAAGAAAAGGTT
1157058 A
1 A
1157059 AGGTAAACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.54, C:0.00, G:0.19, T:0.27
Consensus pattern (31 bp):
ATGTGTAAATAAATGAAATAAAGAAAAGGTT
Found at i:1158882 original size:3 final size:3
Alignment explanation
Indices: 1158874--1158908 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
1158864 TAATTTGTAT
1158874 TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TTAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TA
1158909 TTTATAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.83
4 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:1159175 original size:55 final size:55
Alignment explanation
Indices: 1159098--1159691 Score: 720
Period size: 55 Copynumber: 10.9 Consensus size: 55
1159088 CATTGGGTTC
* * * * * *
1159098 GCTCCCTTTTGCTTCAGGGAGTATAAAACTCAAACAATCTTCATA-AAACAG-GTCC
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCA-ACAAAC-GTGTCT
* * *
1159153 GTTCTCTATTCCTTCAGAGAGTATAGGACT---A-AATCTTCAACAAACGTGTCT
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCT
*
1159204 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAGCAATCTTCAACAATA-GTGTCT
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAA-ACGTGTCT
** * * **
1159259 GCTCCCTATTTATTCAGAGAGTATAAGACTCGAACAATTTTTAACATTCGTGTCT
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCT
* * * *
1159314 GCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTAT
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCT
* * * * ** *
1159369 GCTCTCTATTTCTTCAGAGAGTATAAGACTCAAACAATTTTCAACATTCGTGTAT
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCT
* * * * *
1159424 GCTCCCTATTTCTTC--AGAGTATATGACTTGAAAAACCTTCAACAAACGTGTCT
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCT
*
1159477 GCTCCCTATTCCTTCAGAGAGTATAAGACTTGAACAATCTTCAACAAACGTGTCT
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCT
* *
1159532 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCT
* *
1159587 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTTT
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCT
* * ** *
1159642 GCTCTCTATTTCTTCAGAGAGTATAAGACTCGAGTAATTTTCAACAAACG
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACG
1159692 GGTTCGGTGC
Statistics
Matches: 474, Mismatches: 55, Indels: 20
0.86 0.10 0.04
Matches are distributed among these distances:
50 2 0.00
51 42 0.09
52 1 0.00
53 43 0.09
55 385 0.81
56 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (55 bp):
GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCT
Found at i:1159502 original size:218 final size:217
Alignment explanation
Indices: 1159098--1159674 Score: 725
Period size: 218 Copynumber: 2.6 Consensus size: 217
1159088 CATTGGGTTC
* * * * * * * *
1159098 GCTCCCTTTTGCTTCAGGGAGTATAAAACTCAAACAATCTTCATA-AAACAG-GTCCGTTCTCTA
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCA-ACAATC-GTGTACGCTCTCTA
* * * *
1159161 TTCCTTCAGAGAGTATAGGACT--A-AATCTTCAACAAACGTGTCTGCTCCCTATTCCTTCAGAG
64 TTCCTTCAGAGAGTATAAGACTCAACAATCTTCAACAATCGTGTATGCTCCCTATTTCTTC--AG
** * *
1159223 AGTATAAGACTCGAGCAATCTTCAACAATAGTGTCTGCTCCCTATTTATTCAGAGAGTATAAGAC
127 AGTATAAGACTCGAAAAACCTTCAACAATAGTGTCTGCTCCCTATTCATTCAGAGAGTATAAGAC
* * **
1159288 TCGAACAATTTTTAACATTCGTGTCT
192 TCGAACAATCTTCAACAAACGTGTCT
* * *
1159314 GCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTATGCTCTCTATT
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTACGCTCTCTATT
* * *
1159379 TCTTCAGAGAGTATAAGACTCAAACAATTTTCAACATTCGTGTATGCTCCCTATTTCTTCAGAGT
66 CCTTCAGAGAGTATAAGACTC-AACAATCTTCAACAATCGTGTATGCTCCCTATTTCTTCAGAGT
* * * *
1159444 ATATGACTTGAAAAACCTTCAACAA-ACGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTT
130 ATAAGACTCGAAAAACCTTCAACAATA-GTGTCTGCTCCCTATTCATTCAGAGAGTATAAGACTC
1159508 GAACAATCTTCAACAAACGTGTCT
194 GAACAATCTTCAACAAACGTGTCT
* *
1159532 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCCGCTCCCTATT
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTACGCTCTCTATT
* *
1159597 CCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTTTGCTCTCTATTTCTTCAGAGA
66 CCTTCAGAGAGTATAAGACTC-AACAATCTTCAACAATCGTGTATGCTCCCTATTTCTTC--AGA
1159662 GTATAAGACTCGA
128 GTATAAGACTCGA
1159675 GTAATTTTCA
Statistics
Matches: 310, Mismatches: 42, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
215 2 0.01
216 69 0.22
217 1 0.00
218 193 0.62
219 1 0.00
220 44 0.14
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (217 bp):
GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTACGCTCTCTATT
CCTTCAGAGAGTATAAGACTCAACAATCTTCAACAATCGTGTATGCTCCCTATTTCTTCAGAGTA
TAAGACTCGAAAAACCTTCAACAATAGTGTCTGCTCCCTATTCATTCAGAGAGTATAAGACTCGA
ACAATCTTCAACAAACGTGTCT
Found at i:1159559 original size:273 final size:273
Alignment explanation
Indices: 1159187--1159687 Score: 860
Period size: 273 Copynumber: 1.8 Consensus size: 273
1159177 AGGACTAAAT
*
1159187 CTTCAACAAACGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAGCAATCTTCAACAAT
1 CTTCAACAAACGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAT
* * * * *
1159252 AGTGTCTGCTCCCTATTTATTCAGAGAGTATAAGACTCGAACAATTTTTAACATTCGTGTCTGCT
66 AGTGTCTGCTCCCTATTCATTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCCGCT
* *
1159317 CCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTATGCTCTCTATTTCT
131 CCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTATGCTCTCTATTTCT
1159382 TCAGAGAGTATAAGACTCAAACAATTTTCAACATTCGTGTATGCTCCCTATTTCTTCAGAGTATA
196 TCAGAGAGTATAAGACTCAAACAATTTTCAACATTCGTGTATGCTCCCTATTTCTTCAGAGTATA
1159447 TGACTTGAAAAAC
261 TGACTTGAAAAAC
*
1159460 CTTCAACAAACGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTTGAACAATCTTCAACAA-
1 CTTCAACAAACGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAT
*
1159524 ACGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCCGC
66 A-GTGTCTGCTCCCTATTCATTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCCGC
*
1159589 TCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTTTGCTCTCTATTTC
130 TCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTATGCTCTCTATTTC
* **
1159654 TTCAGAGAGTATAAGACTCGAGTAATTTTCAACA
195 TTCAGAGAGTATAAGACTCAAACAATTTTCAACA
1159688 AACGGGTTCG
Statistics
Matches: 213, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
272 1 0.00
273 212 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.32
Consensus pattern (273 bp):
CTTCAACAAACGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAT
AGTGTCTGCTCCCTATTCATTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCCGCT
CCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTATGCTCTCTATTTCT
TCAGAGAGTATAAGACTCAAACAATTTTCAACATTCGTGTATGCTCCCTATTTCTTCAGAGTATA
TGACTTGAAAAAC
Found at i:1160313 original size:42 final size:41
Alignment explanation
Indices: 1160219--1160325 Score: 115
Period size: 42 Copynumber: 2.6 Consensus size: 41
1160209 GCCCGAAGGT
* ** * *
1160219 CTTATGGATGACCCGAAGGATTTATTCTCTTGCTCGAGAGA
1 CTTATAGATGACCCGAAGGATTTAAGCTCATGCTCGAAAGA
* * *
1160260 CTCACAAATGACCCGAAGGATTTAAGCATCATGCTCGAAAGA
1 CTTATAGATGACCCGAAGGATTTAAGC-TCATGCTCGAAAGA
* *
1160302 CTTATTGATGACCCGAAGGTTTTA
1 CTTATAGATGACCCGAAGGATTTA
1160326 TAAATTGTAA
Statistics
Matches: 52, Mismatches: 13, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
41 21 0.40
42 31 0.60
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (41 bp):
CTTATAGATGACCCGAAGGATTTAAGCTCATGCTCGAAAGA
Found at i:1160711 original size:214 final size:215
Alignment explanation
Indices: 1160199--1161559 Score: 2031
Period size: 217 Copynumber: 6.3 Consensus size: 215
1160189 ATTTTGGTGA
* * * * * * *
1160199 AAAACATCCTGCCCGAAGGTCTTATGGATGACCCGAAGGATTTATTC-TCTTGCTCGAGAGACTC
1 AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTA-TCATCTTGCTCTAAAGGCTT
* * * * **
1160263 ACAAATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTATTGATGACCCGAAGGTTTTATA
65 ACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAAGACTTATA
* * * *
1160328 AATTGTAAAATTTTAAAAATCGCATTCTTCGTTTTCAAAAA-TTCTATCTTCTTAAAACATTATT
130 AATTGTGAAATTTTGAAAATCGCATTCTTAGTTTTCAAAAATTTC-ATCTTCTTAAAACATCA--
1160392 TTTTTTCATTTTCAAATTCATGTG
192 TTTTTTCATTTTCAAATTCATGTG
* * *
1160416 AAAACATCCTACCTGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGTTCTAAAGGCTTA
1 AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
* * *
1160481 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGTCTGAAGGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAAGACTTATAA
* * * * *
1160546 ATTATGAAATTTTGAAAATTGCATTTTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCA-TTT
131 ATTGTGAAATTTTGAAAATCGCATTCTTAGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTT
*
1160610 TTCATTTTTAAATTCATGTG
196 TTCATTTTCAAATTCATGTG
* *
1160630 AAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTAAT-ATCTTGCTCTAAATGCTT
1 AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTT-ATCATCTTGCTCTAAAGGCTT
* *
1160694 ACAGATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACTGATGGCCCAAAAGACTTATA
65 ACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAAGACTTATA
* * * * *
1160759 TAGTGTGAAATTTTGGAAATCGCCTTCTTCGTTTTC-AAAATTTCATCTTCTTAAAACATCATTT
130 AATTGTGAAATTTTGAAAATCGCATTCTTAGTTTTCAAAAATTTCATCTTCTTAAAACATCATTT
* *
1160823 TGTCATTCTCAAATTCATGTG
195 TTTCATTTTCAAATTCATGTG
* * *
1160844 AAAACATCCTACCCGAAGGTCTTACGGATGGCCCGAATGACTTATCATCTTGCTCAAAAGGCTTA
1 AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
* * * *
1160909 CAGATGACCCGAAAGATTTAAACATCAAGCTCGAAAAACTTACTGATGGCCCGAAAGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAAGACTTATAA
* *
1160974 ATTGTGATATTTTGAGAATCGCATTCTTAGTTTTCAAAAATTTCA---TCTTAAAACATCATTTT
131 ATTGTGAAATTTTGAAAATCGCATTCTTAGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTT
1161036 TTCATTTTCAAATTCATGTG
196 TTCATTTTCAAATTCATGTG
* *
1161056 AAAACATCATACCC-ATAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCAAAAGGCTT
1 AAAACATCCTACCCGA-AGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTT
* *
1161120 ACAGATGACCCGAAGGATTTAAGCATCAAGCTCGAAAGACTTACTAATGGCCCGAAAGACTTATA
65 ACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAAGACTTATA
*
1161185 AATTGTGAAATTTTGAAAATTGCATTCTTAGTTTTCAAAAATTTCATCTTCTTAAAACATCATTT
130 AATTGTGAAATTTTGAAAATCGCATTCTTAGTTTTCAAAAATTTCATCTTCTTAAAACATCA--T
*
1161250 TTTTTAATTTTCAAATTCATGTG
193 TTTTTCATTTTCAAATTCATGTG
* *
1161273 AAAACATCTTACCCGAAAGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
1 AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
*
1161338 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATTGCCCG-AAGAACTTATA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAAG-ACTTATA
1161402 AATTGTGAAATTTTGAAAATCGCATTCTTAGTTTTCAAAAATTTCATCTTCTTAAAACATCATTT
130 AATTGTGAAATTTTGAAAATCGCATTCTTAGTTTTCAAAAATTTCATCTTCTTAAAACATCA-TT
*
1161467 TTTTTATTTTCAAATTCATGTG
194 TTTTCATTTTCAAATTCATGTG
1161489 AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
1 AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
1161554 CAGATG
66 CAGATG
1161560 GATTTGCTTC
Statistics
Matches: 1045, Mismatches: 85, Indels: 29
0.90 0.07 0.03
Matches are distributed among these distances:
211 1 0.00
212 198 0.19
213 26 0.02
214 333 0.32
215 24 0.02
216 98 0.09
217 362 0.35
218 3 0.00
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.33
Consensus pattern (215 bp):
AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAAGACTTATAA
ATTGTGAAATTTTGAAAATCGCATTCTTAGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTT
TTCATTTTCAAATTCATGTG
Found at i:1160737 original size:42 final size:41
Alignment explanation
Indices: 1160656--1160756 Score: 96
Period size: 42 Copynumber: 2.4 Consensus size: 41
1160646 AGGTTTTATG
* * * *
1160656 GATGGCCCGAAGGACTTAATATCTTGCTCTAAATGCTTACA
1 GATGACCCGAAGGACTTAACATCATGCTCTAAAAGCTTACA
* *
1160697 GATGACCCGAAGGATTTAAGCATCATGCTC-AAAAGACTTACT
1 GATGACCCGAAGGACTTAA-CATCATGCTCTAAAAG-CTTACA
* * *
1160739 GATGGCCCAAAAGACTTA
1 GATGACCCGAAGGACTTA
1160757 TATAGTGTGA
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
41 21 0.44
42 27 0.56
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.25
Consensus pattern (41 bp):
GATGACCCGAAGGACTTAACATCATGCTCTAAAAGCTTACA
Found at i:1161174 original size:42 final size:41
Alignment explanation
Indices: 1161082--1161182 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 41
1161072 AGGTCTTATG
* ** *
1161082 GATGGCCCGAAGGACTTATCATCTTGCTCAAAAGGCTTACA
1 GATGGCCCGAAGGACTTAGCATCAAGCTCAAAAGACTTACA
* * *
1161123 GATGACCCGAAGGATTTAAGCATCAAGCTCGAAAGACTTACTA
1 GATGGCCCGAAGGACTT-AGCATCAAGCTCAAAAGACTTAC-A
*
1161166 -ATGGCCCGAAAGACTTA
1 GATGGCCCGAAGGACTTA
1161183 TAAATTGTGA
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
41 16 0.33
42 31 0.65
43 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.22
Consensus pattern (41 bp):
GATGGCCCGAAGGACTTAGCATCAAGCTCAAAAGACTTACA
Found at i:1161349 original size:41 final size:40
Alignment explanation
Indices: 1161303--1161400 Score: 106
Period size: 42 Copynumber: 2.4 Consensus size: 40
1161293 CTTATGGATG
* * *
1161303 GCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGAT
1 GCCCGAAGGACTTATCATCATGCTCGAAAGACTTACAGAT
* * *
1161343 GACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATT
1 G-CCCGAAGGACTT-ATCATCATGCTCGAAAGACTTACAGA-T
*
1161386 GCCCGAAGAACTTAT
1 GCCCGAAGGACTTAT
1161401 AAATTGTGAA
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
40 1 0.02
41 12 0.26
42 31 0.67
43 2 0.04
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (40 bp):
GCCCGAAGGACTTATCATCATGCTCGAAAGACTTACAGAT
Found at i:1161605 original size:36 final size:36
Alignment explanation
Indices: 1161546--1161774 Score: 246
Period size: 36 Copynumber: 6.3 Consensus size: 36
1161536 TCTTGCTCTA
* *
1161546 AAGGCTTACAGATGGATTTGCTTCACTATTCTTTGGTG
1 AAGGCTTA-AGATGG-TTTGCTTCACTACTCTTCGGTG
* *
1161584 AAGGCTTAAGATTGTTTGCTTCACCACTCTTCGGTG
1 AAGGCTTAAGATGGTTTGCTTCACTACTCTTCGGTG
* *
1161620 AAGGCTTAAGAT-GATTGCTTCACTACTCTTTGGTG
1 AAGGCTTAAGATGGTTTGCTTCACTACTCTTCGGTG
* * * * * *
1161655 AATGCTTCAA-ATGGATCGCTTCACTATTCTCCAGTG
1 AAGGCTT-AAGATGGTTTGCTTCACTACTCTTCGGTG
*** *
1161691 AATAATTAAGATGGTTTGCTTCACTACTCTTTGGTG
1 AAGGCTTAAGATGGTTTGCTTCACTACTCTTCGGTG
* *
1161727 AAGGCTTAAGATGGTTTTCTTCACTACTCTCCGGTG
1 AAGGCTTAAGATGGTTTGCTTCACTACTCTTCGGTG
*
1161763 AAAGCTTAAGAT
1 AAGGCTTAAGAT
1161775 TGACTTGCCC
Statistics
Matches: 160, Mismatches: 28, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
35 30 0.19
36 117 0.73
37 5 0.03
38 8 0.05
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.37
Consensus pattern (36 bp):
AAGGCTTAAGATGGTTTGCTTCACTACTCTTCGGTG
Found at i:1170373 original size:31 final size:31
Alignment explanation
Indices: 1170335--1170397 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
1170325 AACATACATC
*
1170335 ATGTGTAAATAAATGGAATAAAGAAAAGGTT
1 ATGTGTAAATAAATGAAATAAAGAAAAGGTT
*
1170366 ATGTGTAAATAAATGAAATAAAGAAAATGTT
1 ATGTGTAAATAAATGAAATAAAGAAAAGGTT
1170397 A
1 A
1170398 AGGTAAACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.54, C:0.00, G:0.19, T:0.27
Consensus pattern (31 bp):
ATGTGTAAATAAATGAAATAAAGAAAAGGTT
Found at i:1172231 original size:18 final size:18
Alignment explanation
Indices: 1172210--1172244 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1172200 TGTAATTTGT
1172210 ATTAATAATAATAATATA
1 ATTAATAATAATAATATA
* *
1172228 ATTAATATTTATAATAT
1 ATTAATAATAATAATAT
1172245 TTTTTAAGCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTAATAATAATAATATA
Found at i:1172236 original size:24 final size:24
Alignment explanation
Indices: 1172195--1172243 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
1172185 GGCCTACATA
* **
1172195 AATAATGTAATTTGTATTAATAAT
1 AATAATATAATTAATATTAATAAT
*
1172219 AATAATATAATTAATATTTATAAT
1 AATAATATAATTAATATTAATAAT
1172243 A
1 A
1172244 TTTTTTAAGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (24 bp):
AATAATATAATTAATATTAATAAT
Found at i:1173706 original size:40 final size:40
Alignment explanation
Indices: 1173654--1174079 Score: 622
Period size: 40 Copynumber: 10.7 Consensus size: 40
1173644 ATTTCATTTG
*
1173654 ACTCAAGTTTGTTTTTCCTTGAAACAAAAGATTTTATCTC
1 ACTCAAGATTGTTTTTCCTTGAAACAAAAGATTTTATCTC
* *
1173694 ACTTAAGATTGTTTTTCCTTGAAACATAAGATTTTATCTC
1 ACTCAAGATTGTTTTTCCTTGAAACAAAAGATTTTATCTC
1173734 ACTCAAGATTGTTTTTCCTTGAAACAAAAGATTTTATCTC
1 ACTCAAGATTGTTTTTCCTTGAAACAAAAGATTTTATCTC
* *
1173774 ACTCAAGATTGTTTTTCCTTGAAACAGAAGATTTTATTTC
1 ACTCAAGATTGTTTTTCCTTGAAACAAAAGATTTTATCTC
*
1173814 ATTCAAGATTGTTTTTCCTTGAAACAAAAGATTTTATCTC
1 ACTCAAGATTGTTTTTCCTTGAAACAAAAGATTTTATCTC
* *
1173854 ACTCAATATTGTTTTTCCTTGAAACATAAGATTTTATCTC
1 ACTCAAGATTGTTTTTCCTTGAAACAAAAGATTTTATCTC
* *
1173894 ATTCAAGATTGTTTTTCCTTGAAACAAAAGATTTTATCAC
1 ACTCAAGATTGTTTTTCCTTGAAACAAAAGATTTTATCTC
* *
1173934 GCTCAAGATTGTTTTTCCTTGAAACAGAAGATTTTATCTC
1 ACTCAAGATTGTTTTTCCTTGAAACAAAAGATTTTATCTC
* *
1173974 ATTCAAGATTG-TTTTCCTTGAAACATAAGATTTTATCTC
1 ACTCAAGATTGTTTTTCCTTGAAACAAAAGATTTTATCTC
* * * **
1174013 GCTCAAGATTGGTTTTCCTCGAAACATGAGATTTTATCTC
1 ACTCAAGATTGTTTTTCCTTGAAACAAAAGATTTTATCTC
* ** * *
1174053 GCTTGAGATAG-TTTCCCTTGAAACAAA
1 ACTCAAGATTGTTTTTCCTTGAAACAAA
1174080 TTTTGTCTCC
Statistics
Matches: 350, Mismatches: 35, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
39 48 0.14
40 302 0.86
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.41
Consensus pattern (40 bp):
ACTCAAGATTGTTTTTCCTTGAAACAAAAGATTTTATCTC
Found at i:1173764 original size:23 final size:23
Alignment explanation
Indices: 1173738--1173846 Score: 64
Period size: 23 Copynumber: 5.3 Consensus size: 23
1173728 TATCTCACTC
1173738 AAGATTGTTTTTCCTTGAAACAA
1 AAGATTGTTTTTCCTTGAAACAA
* * **
1173761 AAGA-T-TTTAT-C-T--CACTC
1 AAGATTGTTTTTCCTTGAAACAA
*
1173778 AAGATTGTTTTTCCTTGAAACAG
1 AAGATTGTTTTTCCTTGAAACAA
*
1173801 AAGATT-TTATTTCATT----C--
1 AAGATTGTT-TTTCCTTGAAACAA
1173818 AAGATTGTTTTTCCTTGAAACAA
1 AAGATTGTTTTTCCTTGAAACAA
1173841 AAGATT
1 AAGATT
1173847 TTATCTCACT
Statistics
Matches: 62, Mismatches: 10, Indels: 28
0.62 0.10 0.28
Matches are distributed among these distances:
17 18 0.29
18 3 0.05
19 6 0.10
20 2 0.03
21 6 0.10
22 3 0.05
23 24 0.39
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (23 bp):
AAGATTGTTTTTCCTTGAAACAA
Found at i:1174092 original size:21 final size:22
Alignment explanation
Indices: 1174066--1174116 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
1174056 TGAGATAGTT
1174066 TCCCTTGAAAC-AAATTTTGTC
1 TCCCTTGAAACAAAATTTTGTC
1174087 TCCCTTGAAACAAAATTTTGTC
1 TCCCTTGAAACAAAATTTTGTC
1174109 TCCCTTGA
1 TCCCTTGA
1174117 GACAGTTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 11 0.38
22 18 0.62
ACGTcount: A:0.27, C:0.25, G:0.10, T:0.37
Consensus pattern (22 bp):
TCCCTTGAAACAAAATTTTGTC
Found at i:1174180 original size:21 final size:20
Alignment explanation
Indices: 1174155--1174217 Score: 64
Period size: 21 Copynumber: 3.3 Consensus size: 20
1174145 AAAATGTTTC
1174155 CCTTGAAACAAATTTTGTCT
1 CCTTGAAACAAATTTTGTCT
*
1174175 CTCTTGAGAC--A-TTT-TC-
1 C-CTTGAAACAAATTTTGTCT
1174191 CCTTGAAACAAATTTTGTCT
1 CCTTGAAACAAATTTTGTCT
1174211 CCCTTGA
1 -CCTTGA
1174218 GATCGTTTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 13
0.69 0.04 0.27
Matches are distributed among these distances:
15 7 0.21
16 1 0.03
17 3 0.09
18 6 0.18
19 3 0.09
20 1 0.03
21 13 0.38
ACGTcount: A:0.25, C:0.24, G:0.11, T:0.40
Consensus pattern (20 bp):
CCTTGAAACAAATTTTGTCT
Found at i:1174259 original size:66 final size:64
Alignment explanation
Indices: 1174178--1174346 Score: 207
Period size: 66 Copynumber: 2.6 Consensus size: 64
1174168 TTTGTCTCTC
* *
1174178 TTGAGACATTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGATC-GTTTCTCTTGAAACACAAAA
1 TTGAGACAATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGA-CAGTTTCTCATG-AA-ACAAAA
1174242 TT
63 TT
* * * **
1174244 TTGAGA-ACGTTTCCCTTGAAACGAATTTTGTCTCACTTGAGACAGTTTCTCATGAAACAAGTTT
1 TTGAGACA-ATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCATGAAACAAAATT
*
1174308 TTGAGACAATTTCTCTTGAAACAAATTTTTGTCTCCCTT
1 TTGAGACAATTTCCCTTGAAACAAA-TTTTGTCTCCCTT
1174347 AAAATGGTTT
Statistics
Matches: 89, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
64 26 0.29
65 17 0.19
66 46 0.52
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (64 bp):
TTGAGACAATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCATGAAACAAAATT
Found at i:1174271 original size:102 final size:101
Alignment explanation
Indices: 1174087--1174308 Score: 320
Period size: 102 Copynumber: 2.2 Consensus size: 101
1174077 AAATTTTGTC
* *
1174087 TCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACTTTGAAAATGT
1 TCCCTTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAAACTTTGAAAACGT
* *
1174152 TTCCCTTGAAACAAATTTTGTCTCTCTTGAGACATTT
65 TTCCCTTGAAACAAATTTTGTCTCACTTGAGACAGTT
* *
1174189 TCCCTTGAAACAAATTTTGTCTCCCTTGAGATC-GTTTCTCTTGAAACACAAAATTTTGAGAACG
1 TCCCTTGAAACAAATTTTGTCTCCCTTGAGA-CAGTTTCTCTTGAAACA-AAAACTTTGAAAACG
*
1174253 TTTCCCTTGAAACGAATTTTGTCTCACTTGAGACAGTT
64 TTTCCCTTGAAACAAATTTTGTCTCACTTGAGACAGTT
* * *
1174291 TCTCATGAAACAAGTTTT
1 TCCCTTGAAACAAATTTT
1174309 TGAGACAATT
Statistics
Matches: 108, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
101 35 0.32
102 73 0.68
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (101 bp):
TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAAACTTTGAAAACGTT
TCCCTTGAAACAAATTTTGTCTCACTTGAGACAGTT
Done.