Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 72 of 218
Found at i:21467357 original size:19 final size:19
Alignment explanation
Indices: 21467333--21467371 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
21467323 CTTTTGGGTA
* *
21467333 TTATTTTTTTTAATCTATT
1 TTATTTTATTTAATATATT
21467352 TTATTTTATTTAATATATT
1 TTATTTTATTTAATATATT
21467371 T
1 T
21467372 AAATGGTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (19 bp):
TTATTTTATTTAATATATT
Found at i:21467986 original size:22 final size:21
Alignment explanation
Indices: 21467953--21467994 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
21467943 TGTGTTTGTG
21467953 TTTTCAAAAAAAATTCTCGTGTC
1 TTTTC-AAAAAAATT-TCGTGTC
21467976 TTTT-AAAAAAATTTCGTGT
1 TTTTCAAAAAAATTTCGTGT
21467995 TAAAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 9 0.47
23 4 0.21
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.43
Consensus pattern (21 bp):
TTTTCAAAAAAATTTCGTGTC
Found at i:21468011 original size:16 final size:16
Alignment explanation
Indices: 21467978--21468011 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
21467968 CTCGTGTCTT
* *
21467978 TTAAAAAAATTTCGTG
1 TTAAAAAAAATTCATG
21467994 TTAAAAAAAATTCATG
1 TTAAAAAAAATTCATG
21468010 TT
1 TT
21468012 TTCAAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (16 bp):
TTAAAAAAAATTCATG
Found at i:21468226 original size:53 final size:52
Alignment explanation
Indices: 21468102--21468247 Score: 133
Period size: 53 Copynumber: 2.8 Consensus size: 52
21468092 TCCTCGTTTC
** *
21468102 CAAAAATTCAGGTGATTT-AAAAAATCTTCGTGTTTTCAAAAACTCCGGTTTT
1 CAAAAATTCTCGT-ATTTCAAAAAATCTTCGTGTTTTCAAAAACTCCGGTTCT
* *
21468154 C-AAAATTTTCATGTTTTTCAAAAAAT-TCTCGTG-TTTCAAAAACTTCCGTGTTCT
1 CAAAAATTCTC--GTATTTCAAAAAATCT-TCGTGTTTTCAAAAAC-TCCG-GTTCT
*
21468208 CAAAAATTCTCGTATTTC-AAAAATCTTTGTGCTTTT-AAAA
1 CAAAAATTCTCGTATTTCAAAAAATCTTCGTG-TTTTCAAAA
21468248 CTTTCATGTT
Statistics
Matches: 76, Mismatches: 8, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
51 6 0.08
52 25 0.33
53 29 0.38
54 8 0.11
55 8 0.11
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (52 bp):
CAAAAATTCTCGTATTTCAAAAAATCTTCGTGTTTTCAAAAACTCCGGTTCT
Found at i:21468230 original size:18 final size:18
Alignment explanation
Indices: 21467960--21468549 Score: 113
Period size: 18 Copynumber: 33.3 Consensus size: 18
21467950 GTGTTTTCAA
*
21467960 AAAAAATTCTCGTGTCTTTTA
1 AAAAAATTCTCGTG---TTTC
**
21467981 AAAAAATT-TCGTGTTAA
1 AAAAAATTCTCGTGTTTC
21467998 AAAAAATTCAT-GT-TTTC
1 AAAAAATTC-TCGTGTTTC
* *
21468015 --AAAATTTTCGTGTTTT
1 AAAAAATTCTCGTGTTTC
* * * *
21468031 TAAGATTTTTCGTG--TC
1 AAAAAATTCTCGTGTTTC
* *
21468047 AAAATAATTCTCATGTATC
1 AAAA-AATTCTCGTGTTTC
* *
21468066 GAAAATTTC-CGTGTTTTC
1 AAAAAATTCTCGTG-TTTC
*
21468084 AAAAAATT-TCCTCGTTTC
1 AAAAAATTCTCGT-GTTTC
* **
21468102 CAAAAATTCAGGTGATTT-
1 AAAAAATTCTCGTG-TTTC
21468120 AAAAAA-TCTTCGTGTTTTC
1 AAAAAATTC-TCGTG-TTTC
*
21468139 -AAAAACTC-CG-GTTTTC
1 AAAAAATTCTCGTG-TTTC
** *
21468155 AAAATTTTCAT-GTTTTTC
1 AAAAAATTC-TCGTGTTTC
21468173 AAAAAATTCTCGTGTTTC
1 AAAAAATTCTCGTGTTTC
*
21468191 AAAAACTTC-CGTGTTCTC
1 AAAAAATTCTCGTGTT-TC
*
21468209 -AAAAATTCTCGTATTTC
1 AAAAAATTCTCGTGTTTC
*
21468226 -AAAAA-TCTTTGTGCTTT-
1 AAAAAATTC-TCGTG-TTTC
* * *
21468243 TAAAACTT-TCATGTTTC
1 AAAAAATTCTCGTGTTTC
* *
21468260 -AAAAATTTTCATGTTTTC
1 AAAAAATTCTCGTG-TTTC
*
21468278 AAAAAATTC-CGATG-ATC
1 AAAAAATTCTCG-TGTTTC
*
21468295 AAAGAAATTTTTCGTGATTTC
1 AAA-AAA-TTCTCGTG-TTTC
* *
21468316 TAAAAACTTC-CATGTTTC
1 -AAAAAATTCTCGTGTTTC
*
21468334 -AAAAATTTTCGTGTTT-
1 AAAAAATTCTCGTGTTTC
* * * * *
21468350 TAAGAGTTTTCTTGTTTTC
1 AAAAAATTCTCGTG-TTTC
* * *
21468369 -AACAATTCTTGTATTTC
1 AAAAAATTCTCGTGTTTC
** * *
21468386 -TTAAATTTTCGAGTTTC
1 AAAAAATTCTCGTGTTTC
21468403 AAAAAA---TCGTGTTTTC
1 AAAAAATTCTCGTG-TTTC
21468419 AAAAAAAAATTTCTCGTGTTT-
1 ---AAAAAA-TTCTCGTGTTTC
* *
21468440 -TAAAATCCTCGTGTTTC
1 AAAAAATTCTCGTGTTTC
*
21468457 --AAAATTGTCGTGTTTTC
1 AAAAAATTCTCGTG-TTTC
* * *
21468474 -AAAAATTTTAGTGTTTT
1 AAAAAATTCTCGTGTTTC
* * * *
21468491 TAAGAATTTTCGTGTCTC
1 AAAAAATTCTCGTGTTTC
* *
21468509 -TAAAATTCTCGTGTTTT
1 AAAAAATTCTCGTGTTTC
* *
21468526 AAAAAATTTTCATGTTCTC
1 AAAAAATTCTCGTGTT-TC
21468545 AAAAA
1 AAAAA
21468550 TAAAAAATGT
Statistics
Matches: 417, Mismatches: 94, Indels: 118
0.66 0.15 0.19
Matches are distributed among these distances:
14 1 0.00
15 12 0.03
16 53 0.13
17 122 0.29
18 155 0.37
19 42 0.10
20 9 0.02
21 12 0.03
22 6 0.01
23 5 0.01
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (18 bp):
AAAAAATTCTCGTGTTTC
Found at i:21468452 original size:16 final size:16
Alignment explanation
Indices: 21468424--21468529 Score: 95
Period size: 16 Copynumber: 6.2 Consensus size: 16
21468414 TTTTCAAAAA
21468424 AAAATTTCTCGTGTTTT
1 AAAA-TTCTCGTGTTTT
* *
21468441 AAAATCCTCGTGTTTC
1 AAAATTCTCGTGTTTT
*
21468457 AAAATTGTCGTGTTTT
1 AAAATTCTCGTGTTTT
* *
21468473 CAAAAATTTTAGTGTTTTT
1 --AAAATTCTCGTG-TTTT
* *
21468492 AAGAATTTTCGTGTCTCT
1 AA-AATTCTCGTGT-TTT
21468510 AAAATTCTCGTGTTTT
1 AAAATTCTCGTGTTTT
21468526 AAAA
1 AAAA
21468530 AATTTTCATG
Statistics
Matches: 73, Mismatches: 11, Indels: 11
0.77 0.12 0.12
Matches are distributed among these distances:
16 29 0.40
17 17 0.23
18 23 0.32
19 4 0.05
ACGTcount: A:0.28, C:0.12, G:0.13, T:0.46
Consensus pattern (16 bp):
AAAATTCTCGTGTTTT
Found at i:21468504 original size:52 final size:50
Alignment explanation
Indices: 21468335--21468535 Score: 147
Period size: 53 Copynumber: 3.8 Consensus size: 50
21468325 CCATGTTTCA
* * * * * *
21468335 AAAATTTTCGTGTTTTAAGAGTTTTCTTGTTTTCAACAATTCTTGTATTTCTT
1 AAAATTTTCGTGTTTCAA-AATTATCGTGTTTTCAAAAATT-TTGTGTTT-TT
* *
21468388 -AAATTTTCGAGTTTCAAAA-AATCGTGTTTTCAAAAAAAAATTTCTCGTG-TTTT
1 AAAATTTTCGTGTTTCAAAATTATCGTGTTTTC----AAAAATTT-T-GTGTTTTT
** *
21468441 AAAATCCTCGTGTTTCAAAATTGTCGTGTTTTCAAAAATTTTAGTGTTTTT
1 AAAATTTTCGTGTTTCAAAATTATCGTGTTTTCAAAAATTTT-GTGTTTTT
* * *
21468492 AAGAATTTTCGTGTCTCTAAAATTCTCGTGTTTTAAAAAATTTT
1 AA-AATTTTCGTGTTTC-AAAATTATCGTGTTTTCAAAAATTTT
21468536 CATGTTCTCA
Statistics
Matches: 118, Mismatches: 19, Indels: 22
0.74 0.12 0.14
Matches are distributed among these distances:
50 13 0.11
51 15 0.13
52 26 0.22
53 27 0.23
54 25 0.21
55 12 0.10
ACGTcount: A:0.29, C:0.11, G:0.12, T:0.47
Consensus pattern (50 bp):
AAAATTTTCGTGTTTCAAAATTATCGTGTTTTCAAAAATTTTGTGTTTTT
Found at i:21468515 original size:35 final size:36
Alignment explanation
Indices: 21468457--21468550 Score: 100
Period size: 35 Copynumber: 2.6 Consensus size: 36
21468447 CTCGTGTTTC
* * * * *
21468457 AAAATTGTCGTGTTTTCAAAAATTTTAGTGTTTTTA
1 AAAATTTTCATGTTCTCAAAAATTCTAGTGTTTTAA
* * * *
21468493 AGAATTTTCGTG-TCTCTAAAATTCTCGTGTTTTAA
1 AAAATTTTCATGTTCTCAAAAATTCTAGTGTTTTAA
21468528 AAAATTTTCATGTTCTCAAAAAT
1 AAAATTTTCATGTTCTCAAAAAT
21468551 AAAAAATGTT
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
35 28 0.60
36 19 0.40
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.46
Consensus pattern (36 bp):
AAAATTTTCATGTTCTCAAAAATTCTAGTGTTTTAA
Found at i:21468550 original size:18 final size:18
Alignment explanation
Indices: 21467892--21468550 Score: 221
Period size: 17 Copynumber: 36.7 Consensus size: 18
21467882 AAAAAAATTA
*
21467892 TGTTTTC-AAAACTTTCG
1 TGTTTTCAAAAATTTTCG
*
21467909 TGTTTTC-AAAATTTTTG
1 TGTTTTCAAAAATTTTCG
*
21467926 TGTTTTCAAAACTTTCATGTGTTTG
1 TGTTTTCAAAA-----AT-T-TTCG
*
21467951 TGTTTTCAAAAAAAATTCTCG
1 TGTTTTC---AAAAATTTTCG
* *
21467972 TGTCTTTTAAAAAAATTTCG
1 TG--TTTTCAAAAATTTTCG
* ** *
21467992 TG--TTAAAAAAAATTCA
1 TGTTTTCAAAAATTTTCG
21468008 TGTTTTC-AAAATTTTCG
1 TGTTTTCAAAAATTTTCG
* * *
21468025 TGTTTTTAAGATTTTTCG
1 TGTTTTCAAAAATTTTCG
* *
21468043 TG---TCAAAATAATTCTCA
1 TGTTTTC-AAA-AATTTTCG
* * *
21468060 TG-TATCGAAAATTTCCG
1 TGTTTTCAAAAATTTTCG
* *
21468077 TGTTTTCAAAAAATTTCC
1 TGTTTTCAAAAATTTTCG
* ***
21468095 TCGTTTCCAAAAATTCAGG
1 T-GTTTTCAAAAATTTTCG
* * *
21468114 TGATTTAAAAAATCTTCG
1 TGTTTTCAAAAATTTTCG
* *
21468132 TGTTTTCAAAAA-CTCCG
1 TGTTTTCAAAAATTTTCG
*
21468149 -GTTTTC-AAAATTTTCA
1 TGTTTTCAAAAATTTTCG
*
21468165 TGTTTTTCAAAAAATTCTCG
1 TG-TTTTC-AAAAATTTTCG
* *
21468185 TG-TTTCAAAAACTTCCG
1 TGTTTTCAAAAATTTTCG
* *
21468202 TGTTCTCAAAAATTCTCG
1 TGTTTTCAAAAATTTTCG
*
21468220 T-ATTTCAAAAATCTTT-G
1 TGTTTTCAAAAAT-TTTCG
* *
21468237 TGCTTTT--AAAACTTTCA
1 TG-TTTTCAAAAATTTTCG
*
21468254 TG-TTTCAAAAATTTTCA
1 TGTTTTCAAAAATTTTCG
* *
21468271 TGTTTTCAAAAAATTCCG
1 TGTTTTCAAAAATTTTCG
*
21468289 ATG--ATCAAAGAAATTTTTCG
1 -TGTTTTC-AA-AAA-TTTTCG
* * * *
21468309 TGATTTCTAAAAACTTCCA
1 TGTTTTC-AAAAATTTTCG
21468328 TG-TTTCAAAAATTTTCG
1 TGTTTTCAAAAATTTTCG
* * *
21468345 TGTTTT-AAGAGTTTTCT
1 TGTTTTCAAAAATTTTCG
*
21468362 TGTTTTCAACAATTCTT-G
1 TGTTTTCAAAAATT-TTCG
* **
21468380 T-ATTTCTTAAATTTTCG
1 TGTTTTCAAAAATTTTCG
* *
21468397 AG-TTTCAAAAA--ATCG
1 TGTTTTCAAAAATTTTCG
21468412 TGTTTTCAAAAAAAAATTTCTCG
1 TGTTTTC----AAAAATTT-TCG
**
21468435 TGTTTT--AAAATCCTCG
1 TGTTTTCAAAAATTTTCG
*
21468451 TG-TTTC-AAAATTGTCG
1 TGTTTTCAAAAATTTTCG
*
21468467 TGTTTTCAAAAATTTTAG
1 TGTTTTCAAAAATTTTCG
* *
21468485 TGTTTTTAAGAATTTTCG
1 TGTTTTCAAAAATTTTCG
* * *
21468503 TG-TCTCTAAAATTCTCG
1 TGTTTTCAAAAATTTTCG
* *
21468520 TGTTTTAAAAAATTTTCA
1 TGTTTTCAAAAATTTTCG
*
21468538 TGTTCTCAAAAAT
1 TGTTTTCAAAAAT
21468551 AAAAAATGTT
Statistics
Matches: 468, Mismatches: 116, Indels: 115
0.67 0.17 0.16
Matches are distributed among these distances:
15 15 0.03
16 48 0.10
17 155 0.33
18 144 0.31
19 31 0.07
20 33 0.07
21 8 0.02
22 1 0.00
23 17 0.04
24 1 0.00
25 11 0.02
28 4 0.01
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (18 bp):
TGTTTTCAAAAATTTTCG
Found at i:21470143 original size:9 final size:9
Alignment explanation
Indices: 21470132--21470234 Score: 134
Period size: 9 Copynumber: 11.4 Consensus size: 9
21470122 TTTGATTAAA
*
21470132 AATTAACCA
1 AATTAACCG
21470141 AATTAACCG
1 AATTAACCG
*
21470150 AAATAACCG
1 AATTAACCG
*
21470159 AATTACCCG
1 AATTAACCG
*
21470168 AAATAACCG
1 AATTAACCG
*
21470177 AATTACCCG
1 AATTAACCG
*
21470186 AATTACCCG
1 AATTAACCG
21470195 AATTAACCG
1 AATTAACCG
*
21470204 AATTACCCG
1 AATTAACCG
21470213 AATTAACCG
1 AATTAACCG
*
21470222 AATTAACCA
1 AATTAACCG
21470231 AATT
1 AATT
21470235 GAATCACTAC
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 82 1.00
ACGTcount: A:0.45, C:0.25, G:0.09, T:0.21
Consensus pattern (9 bp):
AATTAACCG
Found at i:21472710 original size:12 final size:12
Alignment explanation
Indices: 21472693--21472725 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
21472683 GACACCACAC
21472693 GGCCATGTGCTA
1 GGCCATGTGCTA
*
21472705 GGCCATGTGGTA
1 GGCCATGTGCTA
21472717 GGCCATGTG
1 GGCCATGTG
21472726 AGCCAAACGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.21, G:0.39, T:0.24
Consensus pattern (12 bp):
GGCCATGTGCTA
Found at i:21477057 original size:17 final size:17
Alignment explanation
Indices: 21477035--21477070 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
21477025 AAACCTGCAA
21477035 AGTATAATCAACCAACC
1 AGTATAATCAACCAACC
21477052 AGTATAATCAACCAACC
1 AGTATAATCAACCAACC
21477069 AG
1 AG
21477071 AATATCCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.28, G:0.08, T:0.17
Consensus pattern (17 bp):
AGTATAATCAACCAACC
Found at i:21479320 original size:75 final size:75
Alignment explanation
Indices: 21479037--21479596 Score: 631
Period size: 77 Copynumber: 7.3 Consensus size: 75
21479027 AAATTATTTC
* * *
21479037 TTTCAATTTATGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTAGGTCGCAT
1 TTTCAATTTATGTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCAGGTCGCAC
*
21479102 GCTAAGGTAT
66 GCTGAGGTAT
* * * *
21479112 TTTCAATTTATGTTTTTCAAAAAAATCAACTTATAATGCAAGAGGTGAGTTGAGCTTCAGGTCGC
1 TTTCAATTTATGTTTTTC--AAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCAGGTCGC
21479177 ACGCTGAGGTAT
64 ACGCTGAGGTAT
*
21479189 TTTCAATTTATGTTTTTCAAAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCAGGTCAC
1 TTTCAATTTATGTTTTTC--AAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCAGGTCGC
* *
21479254 ACACTAAGGTAT
64 ACGCTGAGGTAT
* * *
21479266 TTTCAATTTATGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACAC
1 TTTCAATTTATGTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCAGGTCGCAC
21479331 G-TAGAGGTATT
66 GCT-GAGGTA-T
* * *
21479342 TTTCAATTTATGTTTTTTTTAAAAAAAAAATCAACTCATAAATACGAGAGG-GAGGTGAGCCTCG
1 TTTCAATTTATG---TTTTT----CAAAAATCAACTCAT-AATACGAGAGGTGAGTTGAGCCTCA
*
21479406 GGTCGCACTCTGAGGTATT
58 GGTCGCACGCTGAGGTA-T
* * * * * *
21479425 TTTCAATTTTTGTTTTTTCAAAAATTAACTCATAATCCGAGATGTGAGTTGAGCCTCGGGTTGCA
1 TTTCAATTTATG-TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCAGGTCGCA
21479490 CGCTGAGGTAT
65 CGCTGAGGTAT
* * * * *
21479501 TTTCAATTTCTGTTTTTCAAAGATCAACTCATAATTA-GAAAGATGAGTTGAGCTTCAGGTCGCA
1 TTTCAATTTATGTTTTTCAAAAATCAACTCATAA-TACGAGAGGTGAGTTGAGCCTCAGGTCGCA
* * * *
21479565 CACCGAGCTAG
65 CGCTGAGGTAT
* *
21479576 TTTCGATTTCTGTTTTTCAAA
1 TTTCAATTTATGTTTTTCAAA
21479597 TAAAAATAAA
Statistics
Matches: 425, Mismatches: 45, Indels: 30
0.85 0.09 0.06
Matches are distributed among these distances:
74 1 0.00
75 136 0.32
76 35 0.08
77 179 0.42
79 5 0.01
81 6 0.01
83 52 0.12
84 11 0.03
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (75 bp):
TTTCAATTTATGTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCAGGTCGCAC
GCTGAGGTAT
Found at i:21479501 original size:235 final size:228
Alignment explanation
Indices: 21479037--21479561 Score: 669
Period size: 235 Copynumber: 2.3 Consensus size: 228
21479027 AAATTATTTC
* * * *
21479037 TTTCAATTTATGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTAGGTCGCAT
1 TTTCAATTTATGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCAGGTCACAC
* * * *
21479102 GCTAAGGTATTTTCAATTTATGTTTTTCAAAAAAATCAACTTATAATGCAAGAGGTGAGTTGAGC
66 GCTAAGGTATTTTCAATTTATGTTTTTAAAAAAAATCAACTCATAATACAAGAGGTGAGGTGAGC
*
21479167 TTCAGGTCGCACGCTGAGGTATTTTCAATTTATGTTTTTCAAAAAAATCAACTCATAATACGAGA
131 CTCAGGTCGCACGCTGAGGTATTTTCAATTTATGTTTTTC-AAAAAATCAACTCATAATACGAGA
21479232 GGTGAGTTGAGCCTCAGGTCACACACTAAGGTAT
195 GGTGAGTTGAGCCTCAGGTCACACACTAAGGTAT
*
21479266 TTTCAATTTATGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACAC
1 TTTCAATTTATGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCAGGTCACAC
*
21479331 G-TAGAGGTATTTTTCAATTTATGTTTTTTTTAAAAAAAAAATCAACTCATAAATACGAGAGG-G
66 GCTA-AGGTA-TTTTCAATTTATG---TTTTT--AAAAAAAATCAACTCAT-AATACAAGAGGTG
* * * *
21479394 AGGTGAGCCTCGGGTCGCACTCTGAGGTATTTTTCAATTTTTGTTTTTTC-AAAAATTAACTCAT
123 AGGTGAGCCTCAGGTCGCACGCTGAGGTA-TTTTCAATTTATG-TTTTTCAAAAAATCAACTCAT
* * * ** * *
21479458 AATCCGAGATGTGAGTTGAGCCTCGGGTTGCACGCTGAGGTAT
186 AATACGAGAGGTGAGTTGAGCCTCAGGTCACACACTAAGGTAT
* * ** * * *
21479501 TTTCAATTTCTGTTTTTCAAAGATCAACTCATAATTAGAAAGATGAGTTGAGCTTCAGGTC
1 TTTCAATTTATGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCAGGTC
21479562 GCACACCGAG
Statistics
Matches: 256, Mismatches: 30, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
228 2 0.01
229 66 0.26
230 13 0.05
233 5 0.02
235 143 0.56
236 21 0.08
237 6 0.02
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.34
Consensus pattern (228 bp):
TTTCAATTTATGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCAGGTCACAC
GCTAAGGTATTTTCAATTTATGTTTTTAAAAAAAATCAACTCATAATACAAGAGGTGAGGTGAGC
CTCAGGTCGCACGCTGAGGTATTTTCAATTTATGTTTTTCAAAAAATCAACTCATAATACGAGAG
GTGAGTTGAGCCTCAGGTCACACACTAAGGTAT
Found at i:21479903 original size:30 final size:29
Alignment explanation
Indices: 21479840--21479940 Score: 132
Period size: 30 Copynumber: 3.4 Consensus size: 29
21479830 CAAAAAATTT
* *
21479840 AAATTACATTTTGACCCAT-AACTTTTCA
1 AAATTACATTTTGACCCCTAAACTTTCCA
21479868 AAATTACATTTTGACCCCTAAACTTTCCTA
1 AAATTACATTTTGACCCCTAAACTTTCC-A
* *
21479898 AAATTACATTTTAACCCCTAAAATTTCCCA
1 AAATTACATTTTGACCCCTAAACTTT-CCA
*
21479928 AAATTACACTTTG
1 AAATTACATTTTG
21479941 GCTCCAAAAG
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
28 18 0.28
29 7 0.11
30 37 0.58
31 2 0.03
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.37
Consensus pattern (29 bp):
AAATTACATTTTGACCCCTAAACTTTCCA
Found at i:21480145 original size:24 final size:24
Alignment explanation
Indices: 21480118--21480191 Score: 73
Period size: 24 Copynumber: 3.0 Consensus size: 24
21480108 ATCGGCCAAC
*
21480118 AATCAACAACAAAAA-AGAGGAAAA
1 AATCAA-AAAAAAAAGAGAGGAAAA
21480142 AATCAAAAAAAAAAGAGAGGAAAGA
1 AATCAAAAAAAAAAGAGAGGAAA-A
*
21480167 AGAT--AGAAAAAAAGAGAAGGAAAA
1 A-ATCAAAAAAAAAAGAG-AGGAAAA
21480191 A
1 A
21480192 GAGGGGAGTG
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
23 7 0.16
24 27 0.61
25 8 0.18
26 2 0.05
ACGTcount: A:0.72, C:0.05, G:0.19, T:0.04
Consensus pattern (24 bp):
AATCAAAAAAAAAAGAGAGGAAAA
Found at i:21482804 original size:15 final size:13
Alignment explanation
Indices: 21482784--21482817 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 13
21482774 TAACATAAAA
21482784 TATTTTATTATTTT
1 TATTTTATT-TTTT
21482798 GTATTTTATTTTTT
1 -TATTTTATTTTTT
21482812 TATTTT
1 TATTTT
21482818 CGGTTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 4 0.21
15 9 0.47
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (13 bp):
TATTTTATTTTTT
Found at i:21484981 original size:3 final size:3
Alignment explanation
Indices: 21484973--21485006 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
21484963 CGGTTTCAAC
*
21484973 AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
21485007 GTTAGTTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:21485602 original size:13 final size:15
Alignment explanation
Indices: 21485584--21485615 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
21485574 ATAGTCTCAA
21485584 TAATTAA-A-AATAT
1 TAATTAATATAATAT
21485597 TAATTAATATAATAT
1 TAATTAATATAATAT
21485612 TAAT
1 TAAT
21485616 AGTTTAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 1 0.06
15 9 0.53
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATTAATATAATAT
Found at i:21495873 original size:3 final size:3
Alignment explanation
Indices: 21495865--21495924 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
21495855 TACTAGCATA
21495865 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
21495913 GAT GAT GAT GAT
1 GAT GAT GAT GAT
21495925 AATAATAATA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:21495929 original size:3 final size:3
Alignment explanation
Indices: 21495923--21495949 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
21495913 GATGATGATG
21495923 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
21495950 TGTGTACAAG
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):
ATA
Found at i:21496070 original size:18 final size:17
Alignment explanation
Indices: 21496018--21496070 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
21496008 TAAATAGATG
21496018 AGTAAATGATAATAAAAT
1 AGTAAAT-ATAATAAAAT
* * *
21496036 AATAATAGATGATAAAAT
1 AGTAA-ATATAATAAAAT
21496054 AGTAAATATAATGAAAA
1 AGTAAATATAAT-AAAA
21496071 CGTAAAAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
17 5 0.19
18 21 0.78
19 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.11, T:0.26
Consensus pattern (17 bp):
AGTAAATATAATAAAAT
Found at i:21497435 original size:24 final size:24
Alignment explanation
Indices: 21497391--21497436 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
21497381 TTTTGGGTCT
*
21497391 GTTTGGGTTAGGTTTAGTTTGGTG
1 GTTTGGGTTAGGTTTAATTTGGTG
*
21497415 GTTTTGGTT-GGTTTGAATTTGG
1 GTTTGGGTTAGGTTT-AATTTGG
21497437 GTTGGGTCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.09, C:0.00, G:0.39, T:0.52
Consensus pattern (24 bp):
GTTTGGGTTAGGTTTAATTTGGTG
Found at i:21498072 original size:239 final size:242
Alignment explanation
Indices: 21497632--21498114 Score: 760
Period size: 239 Copynumber: 2.0 Consensus size: 242
21497622 CCACTTCAGG
* *
21497632 GAAATAGGATCGTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGTAACTTCAACCTGC
1 GAAATAAGATCGTTAGTCTGCTCCACTGCAACTTCAGGGAAATAAGACTCGTAACTT--ACC-GC
* * *
21497697 CCACTACAATTTCAAGGAGATAAGGTTTATAGCTTTAATCTGCTCTACTATAACTTTAGAGAGAT
63 CCACTACAATTTCAAGGAGATAAGGTTTATAGCTTTAATCTGCCCTACTACAACTTTAGAGAGAA
* * *
21497762 AAGATTCGCTATCTTCCAAGAGATAATATTTGCTTTATTCAATCTGCTCCACTACAATTTTAAGG
128 AAGATTCGCTATATTCCAAAAGATAAAATTTGCTTTATTCAATCTGCTCCACTACAATTTTAAGG
21497827 AGTTCAGATTTGTAACTTATAGCCTTAATCTATTCCACTGTAACTTCAAA
193 AGTTCAGATTTGTAACTTATAGCCTTAATCTATTCCACTGTAACTTCAAA
*
21497877 GAAATAAGATCGTTAGTCTGCTCCACTTCAACTTCAGGGAAATAAGACTCGTAAC-T-CC-CCCA
1 GAAATAAGATCGTTAGTCTGCTCCACTGCAACTTCAGGGAAATAAGACTCGTAACTTACCGCCCA
* *
21497939 CTACAACTTT-AGGGATATAAGGTTTATAGCTTTAATCTGCCCTACTACAACTTTAGAGAGAAAA
66 CTACAA-TTTCAAGGAGATAAGGTTTATAGCTTTAATCTGCCCTACTACAACTTTAGAGAGAAAA
* *
21498003 GATTCGCTATATTCCAAAAGATAAAATTTGCTTTATTCAATCTGCTCCACTGCAA-TTTCAGGAA
130 GATTCGCTATATTCCAAAAGATAAAATTTGCTTTATTCAATCTGCTCCACTACAATTTTAAGG-A
*
21498067 GTTCAGATTTGTAACTTATAGCCTTAATCTGTTCCACTGTAACTTCAA
194 GTTCAGATTTGTAACTTATAGCCTTAATCTATTCCACTGTAACTTCAA
21498115 GGTTGATGCT
Statistics
Matches: 222, Mismatches: 14, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
238 6 0.03
239 158 0.71
240 3 0.01
241 2 0.01
244 1 0.00
245 52 0.23
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.33
Consensus pattern (242 bp):
GAAATAAGATCGTTAGTCTGCTCCACTGCAACTTCAGGGAAATAAGACTCGTAACTTACCGCCCA
CTACAATTTCAAGGAGATAAGGTTTATAGCTTTAATCTGCCCTACTACAACTTTAGAGAGAAAAG
ATTCGCTATATTCCAAAAGATAAAATTTGCTTTATTCAATCTGCTCCACTACAATTTTAAGGAGT
TCAGATTTGTAACTTATAGCCTTAATCTATTCCACTGTAACTTCAAA
Found at i:21498300 original size:11 final size:10
Alignment explanation
Indices: 21498286--21498351 Score: 53
Period size: 11 Copynumber: 6.4 Consensus size: 10
21498276 GGCCTCTCCT
21498286 TTTTCTTTTTC
1 TTTT-TTTTTC
*
21498297 TTTTCTTTTCC
1 TTTT-TTTTTC
* *
21498308 TTATTTTTCC
1 TTTTTTTTTC
21498318 TTATTTTTTTC
1 TT-TTTTTTTC
*
21498329 TTATTTTTTC
1 TTTTTTTTTC
*
21498339 -TTATTTTTC
1 TTTTTTTTTC
21498348 TTTT
1 TTTT
21498352 ATGAAACATT
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
9 7 0.16
10 17 0.38
11 21 0.47
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:21498324 original size:9 final size:10
Alignment explanation
Indices: 21498302--21498347 Score: 65
Period size: 10 Copynumber: 4.5 Consensus size: 10
21498292 TTTTCTTTTC
21498302 TTTTCCTTAT
1 TTTTCCTTAT
21498312 TTTTCCTTATT
1 TTTTCCTTA-T
*
21498323 TTTTTCTTAT
1 TTTTCCTTAT
*
21498333 TTTTTCTTAT
1 TTTTCCTTAT
21498343 TTTTC
1 TTTTC
21498348 TTTTATGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
10 24 0.73
11 9 0.27
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTCCTTAT
Found at i:21498326 original size:21 final size:21
Alignment explanation
Indices: 21498302--21498346 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
21498292 TTTTCTTTTC
21498302 TTTTCCTTATTTTTCCTTATT
1 TTTTCCTTATTTTTCCTTATT
* *
21498323 TTTTTCTTATTTTTTCTTATT
1 TTTTCCTTATTTTTCCTTATT
21498344 TTT
1 TTT
21498347 CTTTTATGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTCCTTATTTTTCCTTATT
Found at i:21498345 original size:8 final size:9
Alignment explanation
Indices: 21498291--21498349 Score: 55
Period size: 10 Copynumber: 5.9 Consensus size: 9
21498281 CTCCTTTTTC
*
21498291 TTTTTCTTT
1 TTTTTCTTA
21498300 TCTTTTCCTTA
1 T-TTTT-CTTA
21498311 TTTTTCCTTA
1 TTTTT-CTTA
21498321 TTTTTTTCTTA
1 --TTTTTCTTA
21498332 TTTTTTCTTA
1 -TTTTTCTTA
21498342 TTTTTCTT
1 TTTTTCTT
21498350 TTATGAAACA
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
9 9 0.20
10 23 0.51
11 8 0.18
12 5 0.11
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTTCTTA
Found at i:21498353 original size:21 final size:21
Alignment explanation
Indices: 21498291--21498353 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
21498281 CTCCTTTTTC
* *
21498291 TTTTTCTTTTCTTTTC-CTTAT
1 TTTTTCTTAT-TTTTCTTTTAT
*
21498312 TTTTCCTTATTTTT-TTCTTAT
1 TTTTTCTTATTTTTCTT-TTAT
21498333 TTTTTCTTATTTTTCTTTTAT
1 TTTTTCTTATTTTTCTTTTAT
21498354 GAAACATTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 4 0.11
21 29 0.83
22 2 0.06
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTTCTTATTTTTCTTTTAT
Found at i:21505088 original size:44 final size:44
Alignment explanation
Indices: 21505038--21505967 Score: 653
Period size: 44 Copynumber: 20.6 Consensus size: 44
21505028 TTTGAACCTA
*
21505038 CTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTG
* ** * * *
21505082 CCCCACTATAACTTCAGGGAGATAAGATTTTTAGCTTCAATTTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTG
* * *
21505126 TTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTG
* * * *
21505170 CTCCACTGCAACTTTAGGGAGATAAGCTTTGTAGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTG
* * * *
21505214 CTCCACTGTAACTTCAGGGAGATAAGATTTTTAGCTTCAATTTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTG
* * * * *
21505258 TTCCATTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAACCCG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTG
* * * * * *
21505302 CTCCATTGTAACTTTAGGGAGATGAGGTTTGTAACTTGTAGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGT-A----T--CTTCAATCTG
* * * *
21505353 TTCCATTGCAACTTTAGGGAAATAAGATTTGCTATCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG-TATCTTCAATCTG
* * * *
21505398 CTCCACTGCAACTTTAGGGAAATAAGATTTGTAGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTG
* * ** * *
21505442 ATCCACTGCAACTTCAGGGAGATAAGTTTTAAAACTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTG
* * *
21505486 CTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG-TATCTTCAATCTG
* *
21505531 CTCCACTGCAACTTTAGGGAGATAAGACTTGTATCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTG
* * * * *
21505575 CCCCACTACAACTTCAGGGGGATCCGATTGTAATTTGTAGCCTT-AATCTG
1 CTCCACTGCAACTTCAGGGAGAT---A-AG--ATTTGTA-TCTTCAATCTG
* * * * ** * * *
21505625 TTCCACTGCAACTTTAAGGAAATAAGATTCACTATATTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATT-TGTATCTTCAATCTG
* * * * ** * * *
21505670 CTCCATTGCAACTTTAGGGAGATAAAACTCATAACTTAAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTG
* ** * * *
21505714 C-CTCACTGCAACTTAAAGGG-GATCCGATTTGTATTTTGTAGCCTTGATATG
1 CTC-CACTGCAACTT-CAGGGAGATAAGATTTGTA-TCT-T---C--AATCTG
* * * ** **
21505765 TTCCACCGCAACTTCAGGGAAATAAGATTCACTATCTTCCGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATT-TGTATCTTCAATCTG
* * * * *
21505810 CTCCATTGCAACTTCAGGGATATAAGACTTGTAACTTCAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTG
* * * * * *
21505854 C-CCTACTGTAACTTCAGGGAGATAAGGTTTATAGCTTTAATCTA
1 CTCC-ACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTG
* * * * *
21505898 CTCTAATACAACTTCAGGGAGATAAGATTTGCTATCTTCAGTTTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG-TATCTTCAATCTG
* *
21505943 CTCCACTACAACTTTAGGGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAA
21505968 AATTCGTCAT
Statistics
Matches: 687, Mismatches: 166, Indels: 65
0.75 0.18 0.07
Matches are distributed among these distances:
43 3 0.00
44 414 0.60
45 168 0.24
46 2 0.00
47 4 0.01
48 1 0.00
50 33 0.05
51 58 0.08
52 4 0.01
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTG
Found at i:21505482 original size:272 final size:271
Alignment explanation
Indices: 21505091--21505967 Score: 744
Period size: 272 Copynumber: 3.2 Consensus size: 271
21505081 GCCCCACTAT
* * * * * * *
21505091 AACTTCAGGGAGATAAGATTTTTAGCTTCAATTTGTTCCACTGCAACTTCAGGGAGATAAGATTT
1 AACTTTAGGGAAATAAGATTTCTATCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTT
* * ** *
21505156 GTAGCTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGCTTTGTAGCTTTAATCTGCTCCACT
66 GTAGCTTCAACCTGATCCACTGCAACTTCAGGGAGATAAGCTTTAAAACTTTAATCTGCTCCACT
* * * * * *
21505221 GTAACTTCAGGGAGATAAGATTT-TTAGCTTCAATTTGTTCCATTGCAACTTCAGGGAGATAAGA
131 GCAACTTCAGAGAGATAAGATTTGCTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * * ** * * * *
21505285 TTTGTAGCTTCAACCCGCTCCATTGTAACTTTAGGGAGATGAGGTTTGTAACTTGTAGCTTTAAT
196 CTTGTAGCTTCAACCCGCCCCACTACAACTTCAGGGAGAT-ACGATTGTAACTTGTAGCCTTAAT
*
21505350 CTGTTCCATTGC
260 CTGTTCCACTGC
*
21505362 AACTTTAGGGAAATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTTAGGGAAATAAGATT
1 AACTTTAGGGAAATAAGATTT-CTATCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATT
* * * *
21505427 TGTAGCTTTAATCTGATCCACTGCAACTTCAGGGAGATAAGTTTTAAAACTTTAATCTGCTCTAC
65 TGTAGCTTCAACCTGATCCACTGCAACTTCAGGGAGATAAGCTTTAAAACTTTAATCTGCTCCAC
* * *
21505492 TGCAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAG
130 TGCAACTTCAGAGAGATAAGATTTGCTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * * *
21505557 ACTTGTATCTTCAATCTGCCCCACTACAACTTCAGGGGGATCCGATTGTAATTTGTAGCCTTAAT
195 ACTTGTAGCTTCAACCCGCCCCACTACAACTTCAGGGAGATACGATTGTAACTTGTAGCCTTAAT
21505622 CTGTTCCACTGC
260 CTGTTCCACTGC
* * * * * * * *
21505634 AACTTTAAGGAAATAAGATTCACTATATTTAGTCTGCTCCATTGCAACTTTAGGGAGATAAAACT
1 AACTTTAGGGAAATAAGATT-TCTATCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATT
** * * * * ** * ** * * * *
21505699 CATAACTTAAACCTG-CCTCACTGCAACTTAAAGGGGATCCGATTTGTATTTTGTAGCCTTGATA
65 TGTAGCTTCAACCTGATC-CACTGCAACTT-CA-GGGA---GATAAG--CTTTAAAACTTTAATC
* * * * ** * ** *
21505763 TGTTCCACCGCAACTTCAGGGAAATAAGATTCACTATCTTCCGTCTGCTCCATTGCAACTTCAGG
122 TGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTAGCTTCAATCTGCTCCACTGCAACTTCAGG
* * * * ** * *
21505828 GATATAAGACTTGTAACTTCAACCTGCCCTACTGTAACTTCAGGGAGATA--A-GGT---TTATA
187 GAGATAAGACTTGTAGCTTCAACCCGCCCCACTACAACTTCAGGGAGATACGATTGTAACTTGTA
* ** * * *
21505887 GCTTTAATCTACTCTAATAC
252 GCCTTAATCTGTTCCACTGC
* * * * *
21505907 AACTTCAGGGAGATAAGATTTGCTATCTTCAGTTTGCTCCACTACAACTTTAGGGAGATAA
1 AACTTTAGGGAAATAAGATTT-CTATCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAA
21505968 AATTCGTCAT
Statistics
Matches: 493, Mismatches: 101, Indels: 22
0.80 0.16 0.04
Matches are distributed among these distances:
271 20 0.04
272 221 0.45
273 134 0.27
274 4 0.01
276 2 0.00
277 5 0.01
279 107 0.22
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (271 bp):
AACTTTAGGGAAATAAGATTTCTATCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTT
GTAGCTTCAACCTGATCCACTGCAACTTCAGGGAGATAAGCTTTAAAACTTTAATCTGCTCCACT
GCAACTTCAGAGAGATAAGATTTGCTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
CTTGTAGCTTCAACCCGCCCCACTACAACTTCAGGGAGATACGATTGTAACTTGTAGCCTTAATC
TGTTCCACTGC
Found at i:21505802 original size:412 final size:404
Alignment explanation
Indices: 21505039--21505967 Score: 1036
Period size: 412 Copynumber: 2.3 Consensus size: 404
21505029 TTGAACCTAC
* * * * *
21505039 TCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTTAATCTGCCCCACTATAACTTCAGGGAGA
1 TCCACTGCAACTTCAGGGAGATAAGATTTATAACTTTAATCTGCTCTACTACAACTTCAGGGAGA
* * * * * *
21505104 TAAGATTT-TTAGCTTCAATTTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAACC
66 TAAGATTTGCTATCTTCAGTTTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTAGCTTCAACC
* * * * * * *
21505168 TGCTCCACTGCAACTTTAGGGAGATAAGCTTTGTAGCTTTAATCTGCTCCACTGTAACTTCAGGG
131 TGCCCCACTACAACTTCAGGGAGATAAGATTTGTAGCCTTAATCTGCTCCACTGCAACTTCAAGG
* ** * * * * * ** * *
21505233 AGATAAGATTTTTAGCTTCAATTTGTTCCATTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAA
196 AAATAAGATTACTAGATTCAATCTGCTCCATTGCAACTTCAGGGAGATAAAACTCATAACTTAAA
* * * * * * * **
21505298 CCCGCTCCATTGTAACTTTAGGGAGATGAGGTTTGTAACTTGTAGCTTTAATCTGTTCCATTGCA
261 CCCGCTCCACTGCAACTTAAGGGAGATCAGATTTGTAACTTGTAGCCTTAATATGTTCCACCGCA
* ** * *
21505363 ACTTTAGGGAAATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTTAGGGAAATAAGATTT
326 ACTTCAGGGAAATAAGATTCACTATCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGACTT
* * *
21505428 GTAGCTTTAATCTG
391 GTAACTTCAACCTG
* * * *
21505442 ATCCACTGCAACTTCAGGGAGATAAGTTTTAAAACTTTAATCTGCTCTACTGCAACTTCAGAGAG
1 -TCCACTGCAACTTCAGGGAGATAAGATTTATAACTTTAATCTGCTCTACTACAACTTCAGGGAG
* * *
21505507 ATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTATCTTCAAT
65 ATAAGATTTGCTATCTTCAGTTTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTAGCTTCAAC
* * *
21505572 CTGCCCCACTACAACTTCAGGGGGATCCGATTGTAATTTGTAGCCTTAATCTGTTCCACTGCAAC
130 CTGCCCCACTACAACTTCAGGGAGAT---A-AG--ATTTGTAGCCTTAATCTGCTCCACTGCAAC
* * * * *
21505637 TTTAAGGAAATAAGATTCACTATATTTAGTCTGCTCCATTGCAACTTTAGGGAGATAAAACTCAT
189 TTCAAGGAAATAAGATT-ACTAGATTCAATCTGCTCCATTGCAACTTCAGGGAGATAAAACTCAT
* * ** *
21505702 AACTTAAACCTGC-CTCACTGCAACTTAAAGGG-GATCCGATTTGTATTTTGTAGCCTTGATATG
253 AACTTAAACCCGCTC-CACTGCAACTT-AAGGGAGATCAGATTTGTAACTTGTAGCCTTAATATG
** *
21505765 TTCCACCGCAACTTCAGGGAAATAAGATTCACTATCTTCCGTCTGCTCCATTGCAACTTCAGGGA
316 TTCCACCGCAACTTCAGGGAAATAAGATTCACTATCTTCAATCTGCTCCACTGCAACTTCAGGGA
*
21505830 TATAAGACTTGTAACTTCAACCTG
381 AATAAGACTTGTAACTTCAACCTG
* * * * * *
21505854 CCCTACTGTAACTTCAGGGAGATAAGGTTTATAGCTTTAATCTACTCTAATACAACTTCAGGGAG
1 TCC-ACTGCAACTTCAGGGAGATAAGATTTATAACTTTAATCTGCTCTACTACAACTTCAGGGAG
*
21505919 ATAAGATTTGCTATCTTCAGTTTGCTCCACTACAACTTTAGGGAGATAA
65 ATAAGATTTGCTATCTTCAGTTTGCTCCACTGCAACTTTAGGGAGATAA
21505968 AATTCGTCAT
Statistics
Matches: 432, Mismatches: 82, Indels: 14
0.82 0.16 0.03
Matches are distributed among these distances:
404 64 0.15
405 68 0.16
408 1 0.00
409 1 0.00
411 43 0.10
412 251 0.58
413 4 0.01
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (404 bp):
TCCACTGCAACTTCAGGGAGATAAGATTTATAACTTTAATCTGCTCTACTACAACTTCAGGGAGA
TAAGATTTGCTATCTTCAGTTTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTAGCTTCAACC
TGCCCCACTACAACTTCAGGGAGATAAGATTTGTAGCCTTAATCTGCTCCACTGCAACTTCAAGG
AAATAAGATTACTAGATTCAATCTGCTCCATTGCAACTTCAGGGAGATAAAACTCATAACTTAAA
CCCGCTCCACTGCAACTTAAGGGAGATCAGATTTGTAACTTGTAGCCTTAATATGTTCCACCGCA
ACTTCAGGGAAATAAGATTCACTATCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGACTT
GTAACTTCAACCTG
Found at i:21508948 original size:21 final size:23
Alignment explanation
Indices: 21508924--21508966 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
21508914 CAACACAACT
21508924 TCTCA-ATT-AGTGAATATCTTG
1 TCTCACATTAAGTGAATATCTTG
*
21508945 TCTCACATTAAGTGAATTTCTT
1 TCTCACATTAAGTGAATATCTT
21508967 ACTGAGATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 3 0.16
23 11 0.58
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (23 bp):
TCTCACATTAAGTGAATATCTTG
Found at i:21509502 original size:42 final size:42
Alignment explanation
Indices: 21509383--21509508 Score: 180
Period size: 43 Copynumber: 3.0 Consensus size: 42
21509373 GCCCCAAAAG
* *
21509383 TACATTTTGCTAGATTGAGCTTCAGTTGGAATTTTCTCAATC
1 TACATTTTGCTGGATTGAGCTTCAGCTGGAATTTTCTCAATC
* * *
21509425 TACATTTTTGTTGGATTAAGCTTCAGCTAGAATTTTCTCAATC
1 TACA-TTTTGCTGGATTGAGCTTCAGCTGGAATTTTCTCAATC
* *
21509468 TACATTTTACTGGAATGAGCTTCAGCTGGAATTTTCTCAAT
1 TACATTTTGCTGGATTGAGCTTCAGCTGGAATTTTCTCAAT
21509509 TTCAAGAACA
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 36 0.49
43 37 0.51
ACGTcount: A:0.25, C:0.17, G:0.16, T:0.42
Consensus pattern (42 bp):
TACATTTTGCTGGATTGAGCTTCAGCTGGAATTTTCTCAATC
Found at i:21514194 original size:19 final size:20
Alignment explanation
Indices: 21514163--21514216 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
21514153 GGTCTTTTTC
* *
21514163 TGAAATTTAATGCATATG-A
1 TGAAATGTAATGCAAATGCA
*
21514182 TGCAATGTAATGCAAATGCA
1 TGAAATGTAATGCAAATGCA
21514202 TGAAATG-AATGCAAA
1 TGAAATGTAATGCAAA
21514217 AAGAGGTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 23 0.77
20 7 0.23
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28
Consensus pattern (20 bp):
TGAAATGTAATGCAAATGCA
Found at i:21516360 original size:30 final size:31
Alignment explanation
Indices: 21516321--21516380 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
21516311 AGAGGTGGGA
*
21516321 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
21516352 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
21516381 TAAAATGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:21516622 original size:18 final size:18
Alignment explanation
Indices: 21516595--21516629 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21516585 TAGTTTGATA
21516595 TTCGAATTATTCGAATTG
1 TTCGAATTATTCGAATTG
* *
21516613 TTCGAGTTATTCTAATT
1 TTCGAATTATTCGAATT
21516630 TGAAAACTCA
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:0.26, C:0.11, G:0.14, T:0.49
Consensus pattern (18 bp):
TTCGAATTATTCGAATTG
Found at i:21525050 original size:41 final size:41
Alignment explanation
Indices: 21524993--21525140 Score: 183
Period size: 41 Copynumber: 3.6 Consensus size: 41
21524983 TTCCGAATCT
* **
21524993 ATGAAAAGGTTGAAAAGGA-AGTTATTTGAAAAGGATAACAA
1 ATGAAAAGGTTGAAAAGGACA-ATATCCGAAAAGGATAACAA
* *
21525034 ATGAAAAGGTTAAAAAGGACAATATCCGACAAA-GATACCAA
1 ATGAAAAGGTTGAAAAGGACAATATCCGA-AAAGGATAACAA
*
21525075 ATGAAAAGGTTGAAAAGGACAATATCCGAAAAGGATATCAA
1 ATGAAAAGGTTGAAAAGGACAATATCCGAAAAGGATAACAA
* * *
21525116 ATGAATAGGTTGAAAATGACGATAT
1 ATGAAAAGGTTGAAAAGGACAATAT
21525141 TTGAAGAAAA
Statistics
Matches: 94, Mismatches: 10, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
40 3 0.03
41 87 0.93
42 4 0.04
ACGTcount: A:0.51, C:0.08, G:0.22, T:0.20
Consensus pattern (41 bp):
ATGAAAAGGTTGAAAAGGACAATATCCGAAAAGGATAACAA
Found at i:21532187 original size:29 final size:29
Alignment explanation
Indices: 21532155--21532214 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
21532145 CTGAAGTAGG
21532155 AAAGTCTTATGGGACTATTTTATGAGTAC
1 AAAGTCTTATGGGACTATTTTATGAGTAC
21532184 AAAGTCTTATGGGACTATTTTATGAGTAC
1 AAAGTCTTATGGGACTATTTTATGAGTAC
21532213 AA
1 AA
21532215 GTATGCAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (29 bp):
AAAGTCTTATGGGACTATTTTATGAGTAC
Found at i:21548179 original size:14 final size:14
Alignment explanation
Indices: 21548160--21548208 Score: 73
Period size: 14 Copynumber: 3.5 Consensus size: 14
21548150 TCATTTTTAA
21548160 AATTTTTACATTCT
1 AATTTTTACATTCT
21548174 AATTTTTACATTCT
1 AATTTTTACATTCT
*
21548188 AATTCTTT-TATTCT
1 AATT-TTTACATTCT
21548202 AATTTTT
1 AATTTTT
21548209 TTATTTTCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
13 3 0.09
14 27 0.82
15 3 0.09
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (14 bp):
AATTTTTACATTCT
Found at i:21548210 original size:14 final size:14
Alignment explanation
Indices: 21548169--21548213 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
21548159 AAATTTTTAC
**
21548169 ATTCTAATTTTTAC
1 ATTCTAATTTTTTT
*
21548183 ATTCTAATTCTTTT
1 ATTCTAATTTTTTT
21548197 ATTCTAATTTTTTT
1 ATTCTAATTTTTTT
21548211 ATT
1 ATT
21548214 TTCTTCTGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTCTAATTTTTTT
Found at i:21551926 original size:15 final size:15
Alignment explanation
Indices: 21551900--21551935 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
21551890 CCCTTTTACC
*
21551900 TTATTT-TTATTTGT
1 TTATTTATTATTTAT
21551914 TTATTTATTATTTAT
1 TTATTTATTATTTAT
21551929 TTATTTA
1 TTATTTA
21551936 GTTTCTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (15 bp):
TTATTTATTATTTAT
Found at i:21552260 original size:3 final size:3
Alignment explanation
Indices: 21552252--21552290 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
21552242 TTTTATTTTC
*
21552252 TAT TAT TAT TAT TAT TAT TAT T-T TAT TAG TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
21552291 CTTCTTTGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:21553476 original size:6 final size:6
Alignment explanation
Indices: 21553465--21553528 Score: 56
Period size: 6 Copynumber: 9.8 Consensus size: 6
21553455 TTTGTTTCTC
* * *
21553465 TTTTTA TTTTTA TTTTTTTA TGTTTA TGTTTA ATTTTA TTTTTA GTTGTTTTA
1 TTTTTA TTTTTA --TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA --T-TTTTA
21553518 TTTTTA TTTTT
1 TTTTTA TTTTT
21553529 TTAGACTTGT
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
6 36 0.73
7 1 0.02
8 7 0.14
9 5 0.10
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:21553526 original size:26 final size:25
Alignment explanation
Indices: 21553450--21553527 Score: 68
Period size: 26 Copynumber: 2.9 Consensus size: 25
21553440 GGATCAGTGA
*
21553450 TTTTATTTGTTTCTCTTTTTATTTTTAT
1 TTTTA-TTGTTT-TATTTTTA-TTTTAT
* *
21553478 TTTT-TTATGTTTATGTTTAATTTTAT
1 TTTTATTGT-TTTAT-TTTTATTTTAT
21553504 TTTTAGTTGTTTTATTTTTATTTT
1 TTTTA-TTGTTTTATTTTTATTTT
21553528 TTTAGACTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
26 23 0.56
27 11 0.27
28 7 0.17
ACGTcount: A:0.14, C:0.03, G:0.06, T:0.77
Consensus pattern (25 bp):
TTTTATTGTTTTATTTTTATTTTAT
Found at i:21567365 original size:16 final size:16
Alignment explanation
Indices: 21567346--21567387 Score: 59
Period size: 15 Copynumber: 2.6 Consensus size: 16
21567336 TTCATTAGGA
*
21567346 TAATATTTTTATTTTC
1 TAATATTTTTATCTTC
21567362 TAATA-TTTTATCTTC
1 TAATATTTTTATCTTC
21567377 TAATTATTTTT
1 TAA-TATTTTT
21567388 GGATAACTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 12 0.52
16 7 0.30
17 4 0.17
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (16 bp):
TAATATTTTTATCTTC
Found at i:21572032 original size:28 final size:28
Alignment explanation
Indices: 21571991--21572060 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
21571981 CATGGTCTAG
*
21571991 CACATGGCCATGTGGCAGCCCCGTGGCT
1 CACATGGCCGTGTGGCAGCCCCGTGGCT
* * * **
21572019 CACACGGCCGTGTGGTAGTCTTGTGGCT
1 CACATGGCCGTGTGGCAGCCCCGTGGCT
*
21572047 CACATAGCCGTGTG
1 CACATGGCCGTGTG
21572061 TCCAACCCGT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.14, C:0.30, G:0.33, T:0.23
Consensus pattern (28 bp):
CACATGGCCGTGTGGCAGCCCCGTGGCT
Found at i:21576976 original size:21 final size:21
Alignment explanation
Indices: 21576950--21576990 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
21576940 ATGCGGCAAG
21576950 TTAACTGGCCACATCAGCTAA
1 TTAACTGGCCACATCAGCTAA
**
21576971 TTAACTGGCCATGTCAGCTA
1 TTAACTGGCCACATCAGCTA
21576991 TCCCATTAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (21 bp):
TTAACTGGCCACATCAGCTAA
Found at i:21578168 original size:24 final size:24
Alignment explanation
Indices: 21578124--21578170 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
21578114 TTTTCAAAAT
* **
21578124 ATTTAGTATTTATTAGTATAATAA
1 ATTTAGCATTTATTAACATAATAA
21578148 ATTTAGCATTTATTAACATAATA
1 ATTTAGCATTTATTAACATAATA
21578171 TACTTGAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (24 bp):
ATTTAGCATTTATTAACATAATAA
Found at i:21579464 original size:43 final size:43
Alignment explanation
Indices: 21579396--21579495 Score: 148
Period size: 43 Copynumber: 2.3 Consensus size: 43
21579386 GCGTCGCTAA
* * *
21579396 CTTTAGCGACGCTTTTCCGACAAACGCCGCTAAAGACC-CTGAC
1 CTTTAGCGACGCTTTTCCCAAAAACGCCGCTAAAGACCAC-AAC
*
21579439 CTTTAGCGACGCTTTTCCCAAAAACGCTGCTAAAGACCACAAC
1 CTTTAGCGACGCTTTTCCCAAAAACGCCGCTAAAGACCACAAC
21579482 CTTTAGCGACGCTT
1 CTTTAGCGACGCTT
21579496 AAAAAATAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
43 51 0.98
44 1 0.02
ACGTcount: A:0.27, C:0.33, G:0.17, T:0.23
Consensus pattern (43 bp):
CTTTAGCGACGCTTTTCCCAAAAACGCCGCTAAAGACCACAAC
Found at i:21579507 original size:43 final size:43
Alignment explanation
Indices: 21579417--21579509 Score: 100
Period size: 43 Copynumber: 2.2 Consensus size: 43
21579407 CTTTTCCGAC
* ****
21579417 AAACGCCGCTAAAGACCCTGACCTTTAGCGACGCTTTTCCCAA
1 AAACGCCGCTAAAGACCCTAACCTTTAGCGACGCTTTAAAAAA
*
21579460 AAACGCTGCTAAAGACCAC-AACCTTTAGCGACGC-TTAAAAAA
1 AAACGCCGCTAAAGACC-CTAACCTTTAGCGACGCTTTAAAAAA
21579502 TAAACGCC
1 -AAACGCC
21579510 ACAATGAAGA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
42 4 0.10
43 36 0.88
44 1 0.02
ACGTcount: A:0.35, C:0.31, G:0.15, T:0.18
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCCTAACCTTTAGCGACGCTTTAAAAAA
Found at i:21583502 original size:38 final size:38
Alignment explanation
Indices: 21583468--21583540 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
21583458 TGATAAACCG
* *
21583468 AACTTTGTGAGATAAACATGTAAAAAGCAGATAAAAGA
1 AACTTTGTGAGATAAACATATAAAAAACAGATAAAAGA
*
21583506 AAGTTTGTGAGATAAACATATAAAAAACAGATAAA
1 AACTTTGTGAGATAAACATATAAAAAACAGATAAA
21583541 GTTTGTAACC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.55, C:0.07, G:0.16, T:0.22
Consensus pattern (38 bp):
AACTTTGTGAGATAAACATATAAAAAACAGATAAAAGA
Found at i:21584382 original size:39 final size:39
Alignment explanation
Indices: 21584333--21584417 Score: 116
Period size: 39 Copynumber: 2.2 Consensus size: 39
21584323 TTGGGCCTAG
* *
21584333 TTTTTTGCGGCGCTTTTCTAAAAACGCCACTAATGCTCA
1 TTTTTAGCGGCGCTTTTCGAAAAACGCCACTAATGCTCA
* * * *
21584372 TTTTTAGCGGCGTTTTTCGAAAAGCGCCGCTAATGCTTA
1 TTTTTAGCGGCGCTTTTCGAAAAACGCCACTAATGCTCA
21584411 TTTTTAG
1 TTTTTAG
21584418 TGATTTTATT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (39 bp):
TTTTTAGCGGCGCTTTTCGAAAAACGCCACTAATGCTCA
Found at i:21584446 original size:23 final size:23
Alignment explanation
Indices: 21584420--21584466 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 23
21584410 ATTTTTAGTG
21584420 ATTTTATTTA-TTTATTTGTTAAA
1 ATTTT-TTTATTTTATTTGTTAAA
21584443 ATTTTTTTATTTTATTTGTTAAA
1 ATTTTTTTATTTTATTTGTTAAA
21584466 A
1 A
21584467 ATTATTAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (23 bp):
ATTTTTTTATTTTATTTGTTAAA
Found at i:21584849 original size:21 final size:22
Alignment explanation
Indices: 21584810--21584850 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
21584800 TCTAAAACCC
21584810 TAAATCCCTAACCCCTAAACTT
1 TAAATCCCTAACCCCTAAACTT
*
21584832 TAAATCCC-AACCCTTAAAC
1 TAAATCCCTAACCCCTAAAC
21584851 AATAAACCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.39, C:0.37, G:0.00, T:0.24
Consensus pattern (22 bp):
TAAATCCCTAACCCCTAAACTT
Found at i:21584856 original size:21 final size:22
Alignment explanation
Indices: 21584810--21584856 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
21584800 TCTAAAACCC
**
21584810 TAAATCCCTAACCCCTAAACTT
1 TAAATCCCTAACCCCTAAACAA
*
21584832 TAAATCCC-AACCCTTAAACAA
1 TAAATCCCTAACCCCTAAACAA
21584853 TAAA
1 TAAA
21584857 CCATAAACTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.23
Consensus pattern (22 bp):
TAAATCCCTAACCCCTAAACAA
Found at i:21585078 original size:16 final size:17
Alignment explanation
Indices: 21585042--21585083 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
21585032 CACTATAATC
21585042 ATTATTTTAATATATTAA
1 ATTA-TTTAATATATTAA
21585060 ATTATTTAATATA-TAA
1 ATTATTTAATATATTAA
21585076 ATTATTTA
1 ATTATTTA
21585084 TAAAGAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 11 0.46
17 9 0.38
18 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTATTTAATATATTAA
Found at i:21585251 original size:14 final size:14
Alignment explanation
Indices: 21585232--21585357 Score: 53
Period size: 14 Copynumber: 9.0 Consensus size: 14
21585222 AACTCTCAAC
21585232 CCCTAAACCTTAAA
1 CCCTAAACCTTAAA
*
21585246 CCCTAACCCTT-AA
1 CCCTAAACCTTAAA
*
21585259 -TCTATAACCTTAAA
1 CCCTA-AACCTTAAA
* **
21585273 CCATAAA-CTGCAA
1 CCCTAAACCTTAAA
*
21585286 CCCTTAAACCCTAAA
1 CCC-TAAACCTTAAA
* * *
21585301 TCTTAAACCATAAA
1 CCCTAAACCTTAAA
** *
21585315 CTATAAA-CTATAAC
1 CCCTAAACCT-TAAA
* *
21585329 CCCTAAACTCATAAT
1 CCCTAAAC-CTTAAA
*
21585344 CCATAAACCTTAAA
1 CCCTAAACCTTAAA
21585358 ATAGTAACTC
Statistics
Matches: 78, Mismatches: 26, Indels: 16
0.65 0.22 0.13
Matches are distributed among these distances:
12 3 0.04
13 14 0.18
14 44 0.56
15 16 0.21
16 1 0.01
ACGTcount: A:0.44, C:0.31, G:0.01, T:0.25
Consensus pattern (14 bp):
CCCTAAACCTTAAA
Found at i:21585253 original size:21 final size:21
Alignment explanation
Indices: 21585191--21585254 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
21585181 ACTAATTAAT
* *
21585191 CTAAACCCTAAATCCTAAACCC
1 CTAAACCTTAAACCCTA-ACCC
*
21585213 CT-AACTCTT-AACTCTCAACCC
1 CTAAAC-CTTAAACCCT-AACCC
21585234 CTAAACCTTAAACCCTAACCC
1 CTAAACCTTAAACCCTAACCC
21585255 TTAATCTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
21 21 0.62
22 13 0.38
ACGTcount: A:0.36, C:0.42, G:0.00, T:0.22
Consensus pattern (21 bp):
CTAAACCTTAAACCCTAACCC
Found at i:21585297 original size:42 final size:43
Alignment explanation
Indices: 21585246--21585357 Score: 122
Period size: 42 Copynumber: 2.7 Consensus size: 43
21585236 AAACCTTAAA
*
21585246 CCCT-AACCCTTAATCTAT-AACCTTAAACCATAAACTGCAAC
1 CCCTAAACCCTTAATCTATAAACCTTAAACCATAAACTACAAC
* * * * *
21585287 CCTTAAACCCTAAATCT-TAAACCATAAACTATAAACTATAAC
1 CCCTAAACCCTTAATCTATAAACCTTAAACCATAAACTACAAC
* * *
21585329 CCCTAAACTCATAATCCATAAACCTTAAA
1 CCCTAAACCCTTAATCTATAAACCTTAAA
21585358 ATAGTAACTC
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
41 4 0.07
42 42 0.75
43 10 0.18
ACGTcount: A:0.44, C:0.30, G:0.01, T:0.25
Consensus pattern (43 bp):
CCCTAAACCCTTAATCTATAAACCTTAAACCATAAACTACAAC
Found at i:21585314 original size:21 final size:21
Alignment explanation
Indices: 21585206--21585315 Score: 66
Period size: 21 Copynumber: 5.2 Consensus size: 21
21585196 CCCTAAATCC
*
21585206 TAAACCCCTAACTCTT-AACTCT
1 TAAA-CCCTAAATCTTAAAC-CT
* * * *
21585228 CAACCCCTAAACCTTAAACCC
1 TAAACCCTAAATCTTAAACCT
*
21585249 T-AACCCTTAATC-TATAACCT
1 TAAACCCTAAATCTTA-AACCT
* * *
21585269 TAAACCATAAA-CTGCAACCCT
1 TAAACCCTAAATCT-TAAACCT
*
21585290 TAAACCCTAAATCTTAAACCA
1 TAAACCCTAAATCTTAAACCT
21585311 TAAAC
1 TAAAC
21585316 TATAAACTAT
Statistics
Matches: 64, Mismatches: 18, Indels: 13
0.67 0.19 0.14
Matches are distributed among these distances:
19 2 0.03
20 14 0.22
21 40 0.62
22 8 0.12
ACGTcount: A:0.40, C:0.35, G:0.01, T:0.25
Consensus pattern (21 bp):
TAAACCCTAAATCTTAAACCT
Found at i:21585357 original size:22 final size:23
Alignment explanation
Indices: 21585332--21585382 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
21585322 CTATAACCCC
21585332 TAAACTCA-TAA-TCCATAAACCT
1 TAAACTCAGTAACTCC-TAAACCT
*
21585354 TAAAAT-AGTAACTCCTAAACCT
1 TAAACTCAGTAACTCCTAAACCT
21585376 TAAACTC
1 TAAACTC
21585383 TAAATCATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
21 1 0.04
22 20 0.83
23 3 0.12
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.27
Consensus pattern (23 bp):
TAAACTCAGTAACTCCTAAACCT
Found at i:21585699 original size:19 final size:20
Alignment explanation
Indices: 21585673--21585718 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
21585663 ATAGAATTTT
21585673 AATT-AATA-TAAATAAACA
1 AATTAAATAGTAAATAAACA
* *
21585691 AATTAAATAGTAATTAGACA
1 AATTAAATAGTAAATAAACA
*
21585711 AATAAAAT
1 AATTAAAT
21585719 GTTTTTGCGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 15 0.65
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.28
Consensus pattern (20 bp):
AATTAAATAGTAAATAAACA
Found at i:21585783 original size:41 final size:41
Alignment explanation
Indices: 21585725--21585917 Score: 305
Period size: 41 Copynumber: 4.7 Consensus size: 41
21585715 AAATGTTTTT
*
21585725 GCGGCGCTTTTCAAAAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
* * *
21585766 GCGGCGCTTTTCCAAAAACGCTGCTAAAGACCTGAGCTTTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
* *
21585807 GCGGCACTTTTCCAGAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
*
21585848 GCGGCGCTTCTCCAAAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
**
21585889 GCGGCGCTTTTATAAAAACGCCGCTAAAG
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAG
21585918 CCCCGAAAGG
Statistics
Matches: 137, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 137 1.00
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.19
Consensus pattern (41 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
Found at i:21585978 original size:40 final size:40
Alignment explanation
Indices: 21585928--21586005 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 40
21585918 CCCCGAAAGG
*
21585928 TCAATCTTTAGCGGCGTTTTATTTA-AAGCGCCACTAATGC
1 TCAATCTTTAGCGGCGTTTT-TTTACAAACGCCACTAATGC
*
21585968 TCAATTTTTAGCGGCGTTTTTTTACCAAACGCCACTAA
1 TCAATCTTTAGCGGCGTTTTTTTA-CAAACGCCACTAA
21586006 AAATGCCGCT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
39 4 0.12
40 19 0.56
41 11 0.32
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (40 bp):
TCAATCTTTAGCGGCGTTTTTTTACAAACGCCACTAATGC
Found at i:21587278 original size:24 final size:23
Alignment explanation
Indices: 21587218--21587278 Score: 86
Period size: 23 Copynumber: 2.6 Consensus size: 23
21587208 AAGATCTAGT
*
21587218 ATTTATTAGTATAATATATTTAG
1 ATTTATTAGTATAATATATTTAC
* *
21587241 ATTTACTAGCATAATATATTTGAC
1 ATTTATTAGTATAATATATTT-AC
21587265 ATTTATTAGTATAA
1 ATTTATTAGTATAA
21587279 AAATATTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 19 0.59
24 13 0.41
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.48
Consensus pattern (23 bp):
ATTTATTAGTATAATATATTTAC
Found at i:21599953 original size:24 final size:24
Alignment explanation
Indices: 21599924--21600030 Score: 91
Period size: 24 Copynumber: 4.5 Consensus size: 24
21599914 TTCCACTAGA
21599924 AATAAAAATAAGAACAATGAAA-AT
1 AATAAAAATAA-AACAATGAAATAT
21599948 AATAAAAAT-AAACTAA-GAAATAT
1 AATAAAAATAAAAC-AATGAAATAT
** *
21599971 AGGAATAATAAAACATAT-AAATAT
1 AATAAAAATAAAACA-ATGAAATAT
* *
21599995 AATAACAATAAAAATAATGAAA-AT
1 AATAAAAAT-AAAACAATGAAATAT
21600019 AAT-AAAATAAAA
1 AATAAAAATAAAA
21600031 TAATAGAACA
Statistics
Matches: 68, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
22 11 0.16
23 16 0.24
24 33 0.49
25 8 0.12
ACGTcount: A:0.70, C:0.04, G:0.06, T:0.21
Consensus pattern (24 bp):
AATAAAAATAAAACAATGAAATAT
Found at i:21599957 original size:9 final size:9
Alignment explanation
Indices: 21599943--21600025 Score: 50
Period size: 9 Copynumber: 9.3 Consensus size: 9
21599933 AAGAACAATG
21599943 AAAATAATA
1 AAAATAATA
21599952 AAAATAAACTA
1 AAAAT-AA-TA
21599963 AGAAAT-ATA
1 A-AAATAATA
**
21599972 GGAATAATA
1 AAAATAATA
21599981 AAACAT-AT-
1 AAA-ATAATA
21599989 -AAAT-ATA
1 AAAATAATA
* *
21599996 ATAACAATA
1 AAAATAATA
*
21600005 AAAATAATG
1 AAAATAATA
21600014 AAAATAATA
1 AAAATAATA
21600023 AAA
1 AAA
21600026 TAAAATAATA
Statistics
Matches: 56, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
6 4 0.07
7 2 0.04
8 5 0.09
9 33 0.59
10 5 0.09
11 3 0.05
12 4 0.07
ACGTcount: A:0.70, C:0.04, G:0.05, T:0.22
Consensus pattern (9 bp):
AAAATAATA
Found at i:21600005 original size:15 final size:14
Alignment explanation
Indices: 21599987--21600033 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
21599977 AATAAAACAT
21599987 ATAAATATAATAACA
1 ATAAATATAATAA-A
*
21600002 ATAAAAATAATGAAA
1 ATAAATATAAT-AAA
*
21600017 AT-AATAAAATAAA
1 ATAAATATAATAAA
21600030 ATAA
1 ATAA
21600034 TAGAACATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
13 5 0.19
14 7 0.26
15 13 0.48
16 2 0.07
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (14 bp):
ATAAATATAATAAA
Found at i:21600043 original size:23 final size:24
Alignment explanation
Indices: 21599924--21600043 Score: 81
Period size: 24 Copynumber: 5.1 Consensus size: 24
21599914 TTCCACTAGA
* * *
21599924 AATAAAAATAAGAACAATGAAAAT
1 AATAACAATAAAAATAATGAAAAT
* *
21599948 AATAAAAAT-AAACTAA-GAAATAT
1 AATAACAATAAAAATAATGAAA-AT
** *
21599971 AGGAATAATAAAACAT-AT-AAATAT
1 AATAACAATAAAA-ATAATGAAA-AT
21599995 AATAACAATAAAAATAATGAAAAT
1 AATAACAATAAAAATAATGAAAAT
*
21600019 AATAA-AAT-AAAATAATAGAACAT
1 AATAACAATAAAAATAAT-GAAAAT
21600042 AA
1 AA
21600044 ACATGAAAAA
Statistics
Matches: 78, Mismatches: 11, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
22 12 0.15
23 24 0.31
24 38 0.49
25 4 0.05
ACGTcount: A:0.69, C:0.04, G:0.06, T:0.21
Consensus pattern (24 bp):
AATAACAATAAAAATAATGAAAAT
Found at i:21606629 original size:18 final size:17
Alignment explanation
Indices: 21606602--21606635 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
21606592 ATTAGAATGT
*
21606602 AAAAATTAAATTAAAAC
1 AAAAATTAAAATAAAAC
21606619 AAAAATATAAAATAAAA
1 AAAAAT-TAAAATAAAA
21606636 TAAACAATGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAAATTAAAATAAAAC
Found at i:21614076 original size:15 final size:16
Alignment explanation
Indices: 21614047--21614085 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
21614037 TTTTTATTTT
*
21614047 TATTTTTAATCAAATA
1 TATTTTTAATAAAATA
21614063 TATTTTT-ATAAAATA
1 TATTTTTAATAAAATA
21614078 TATATTTT
1 TAT-TTTT
21614086 TTGGACTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTTTTAATAAAATA
Found at i:21614121 original size:42 final size:41
Alignment explanation
Indices: 21614014--21614127 Score: 115
Period size: 42 Copynumber: 2.7 Consensus size: 41
21614004 CCGGCCCTGC
** *
21614014 CCGAATTATATATTAAATATATATTTTTATTTTTATTTTTAAT
1 CCGAATTATATATTAAATATATA-TTTT-TTTGGACTTTTAAT
* * *
21614057 -C-AAATATATTTTTATAAAATATATATTTTTTGGACTTTTAAT
1 CCGAATTATA-TATTA-AATATATAT-TTTTTTGGACTTTTAAT
21614099 CCGAATTATATATTAAATATATATTTTTT
1 CCGAATTATATATTAAATATATATTTTTT
21614128 ATTTTTAATC
Statistics
Matches: 57, Mismatches: 9, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
41 11 0.19
42 25 0.44
43 15 0.26
44 6 0.11
ACGTcount: A:0.37, C:0.05, G:0.04, T:0.54
Consensus pattern (41 bp):
CCGAATTATATATTAAATATATATTTTTTTGGACTTTTAAT
Found at i:21614134 original size:38 final size:38
Alignment explanation
Indices: 21614014--21614137 Score: 115
Period size: 40 Copynumber: 3.0 Consensus size: 38
21614004 CCGGCCCTGC
21614014 CCGAATTATATATTAAATATATATTTTTATTTTTATTTTTAAT
1 CCGAATTATATATTAAATATATA----T-TTTTTATTTTTAAT
* * * *
21614057 -CAAATATATTTTTATAAAATATATATTTTTTGGACTTTTAAT
1 CCGAAT-TA--TATATTAAATATATATTTTTT--ATTTTTAAT
21614099 CCGAATTATATATTAAATATATATTTTTTATTTTTAAT
1 CCGAATTATATATTAAATATATATTTTTTATTTTTAAT
21614137 C
1 C
21614138 AAATATGGAC
Statistics
Matches: 67, Mismatches: 8, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
38 9 0.13
40 24 0.36
41 1 0.01
42 14 0.21
43 6 0.09
45 13 0.19
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (38 bp):
CCGAATTATATATTAAATATATATTTTTTATTTTTAAT
Found at i:21630016 original size:18 final size:18
Alignment explanation
Indices: 21629992--21630035 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
21629982 CACAGTTTGG
*
21629992 CAAATTAATACAGTTCAC
1 CAAATTAATACAGATCAC
*
21630010 CATATTAATACAGATCAC
1 CAAATTAATACAGATCAC
21630028 CAAATTAA
1 CAAATTAA
21630036 CATAGTTAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.48, C:0.20, G:0.05, T:0.27
Consensus pattern (18 bp):
CAAATTAATACAGATCAC
Found at i:21635675 original size:25 final size:25
Alignment explanation
Indices: 21635624--21635675 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
21635614 AATCTAGGTT
* * *
21635624 AAATATAGTTCAAGTAGGAAATTAA
1 AAATAGAGTTCAACTAGGAAATGAA
* *
21635649 AAATAGAGTTTAACTAGGAGATGAA
1 AAATAGAGTTCAACTAGGAAATGAA
21635674 AA
1 AA
21635676 GTTAAAGTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.52, C:0.04, G:0.19, T:0.25
Consensus pattern (25 bp):
AAATAGAGTTCAACTAGGAAATGAA
Found at i:21637135 original size:16 final size:16
Alignment explanation
Indices: 21637114--21637146 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
21637104 AAGGTTGTTG
21637114 AACTGAAATAGAGTTT
1 AACTGAAATAGAGTTT
21637130 AACTGAAATAGAGTTT
1 AACTGAAATAGAGTTT
21637146 A
1 A
21637147 CTCTTTCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.30
Consensus pattern (16 bp):
AACTGAAATAGAGTTT
Found at i:21639369 original size:19 final size:19
Alignment explanation
Indices: 21639347--21639489 Score: 126
Period size: 19 Copynumber: 7.4 Consensus size: 19
21639337 ATGCACCTCA
21639347 TGTGCCAATATGCACTTTG
1 TGTGCCAATATGCACTTTG
* *
21639366 TGTGCCAGTATGCGCTTTG
1 TGTGCCAATATGCACTTTG
** *
21639385 TGCACCAGGA-ATGCGCTTTG
1 TGTGCCA--ATATGCACTTTG
* *
21639405 TGTGCCAAGATGCACTTCG
1 TGTGCCAATATGCACTTTG
** *
21639424 TGTGCCAGGATGTACTTTG
1 TGTGCCAATATGCACTTTG
* **
21639443 TGTGCCAATATACGTTTTG
1 TGTGCCAATATGCACTTTG
*
21639462 TGTGCCAATAATGCACTTCG
1 TGTGCCAAT-ATGCACTTTG
21639482 TGTGCCAA
1 TGTGCCAA
21639490 GTTGCACATT
Statistics
Matches: 98, Mismatches: 22, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
18 1 0.01
19 68 0.69
20 29 0.30
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.33
Consensus pattern (19 bp):
TGTGCCAATATGCACTTTG
Found at i:21639418 original size:58 final size:57
Alignment explanation
Indices: 21639347--21639488 Score: 160
Period size: 58 Copynumber: 2.5 Consensus size: 57
21639337 ATGCACCTCA
* * * * *
21639347 TGTGCCAATATGCACTTTGTGTGCCAGTATGCGCTTTGTGCACCAGGA-ATGCGCTTTG
1 TGTGCCAAAATGCACTTCGTGTGCCAGGATGCACTTTGTGCACCA--ATATACGCTTTG
* * ** *
21639405 TGTGCCAAGATGCACTTCGTGTGCCAGGATGTACTTTGTGTGCCAATATACGTTTTG
1 TGTGCCAAAATGCACTTCGTGTGCCAGGATGCACTTTGTGCACCAATATACGCTTTG
21639462 TGTGCCAATAATGCACTTCGTGTGCCA
1 TGTGCCAA-AATGCACTTCGTGTGCCA
21639489 AGTTGCACAT
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
56 1 0.01
57 16 0.22
58 55 0.76
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.33
Consensus pattern (57 bp):
TGTGCCAAAATGCACTTCGTGTGCCAGGATGCACTTTGTGCACCAATATACGCTTTG
Found at i:21639443 original size:77 final size:77
Alignment explanation
Indices: 21639331--21639505 Score: 188
Period size: 77 Copynumber: 2.3 Consensus size: 77
21639321 CACTTCATAC
* * * * *
21639331 GCCATGATGCACCTCATGTGCCAATATGCACTTTGTGTGCCAGTATGCGCTTTGTGCACCAGGAA
1 GCCAAGATGCACCTCATGTGCCAAGATGCACTTTGTGTGCCAATATACGCTTTGTGCACCAAGAA
* *
21639396 TGCGCTTTGTGT
66 TGCACTTCGTGT
* * * * * ** *
21639408 GCCAAGATGCACTTCGTGTGCCAGGATGTACTTTGTGTGCCAATATACGTTTTGTGTGCCAATAA
1 GCCAAGATGCACCTCATGTGCCAAGATGCACTTTGTGTGCCAATATACGCTTTGTGCACCAAGAA
21639473 TGCACTTCGTGT
66 TGCACTTCGTGT
* * *
21639485 GCCAAGTTGCACATTATGTGC
1 GCCAAGATGCACCTCATGTGC
21639506 TAGTTACCCT
Statistics
Matches: 79, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
77 79 1.00
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.32
Consensus pattern (77 bp):
GCCAAGATGCACCTCATGTGCCAAGATGCACTTTGTGTGCCAATATACGCTTTGTGCACCAAGAA
TGCACTTCGTGT
Found at i:21639465 original size:38 final size:39
Alignment explanation
Indices: 21639356--21639489 Score: 144
Period size: 39 Copynumber: 3.5 Consensus size: 39
21639346 ATGTGCCAAT
* **
21639356 ATGCACTTTGTGTGCCAGTATGCGCTTTGTGCACCAGGA
1 ATGCACTTTGTGTGCCAATATGCGCTTTGTGTGCCAGGA
* * * *
21639395 ATGCGCTTTGTGTGCCAAGATGCACTTCGTGTGCCAGG-
1 ATGCACTTTGTGTGCCAATATGCGCTTTGTGTGCCAGGA
* * * **
21639433 ATGTACTTTGTGTGCCAATATACGTTTTGTGTGCCAATA
1 ATGCACTTTGTGTGCCAATATGCGCTTTGTGTGCCAGGA
*
21639472 ATGCACTTCGTGTGCCAA
1 ATGCACTTTGTGTGCCAA
21639490 GTTGCACATT
Statistics
Matches: 76, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
38 29 0.38
39 47 0.62
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.33
Consensus pattern (39 bp):
ATGCACTTTGTGTGCCAATATGCGCTTTGTGTGCCAGGA
Found at i:21640687 original size:27 final size:27
Alignment explanation
Indices: 21640649--21640705 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
21640639 GGCATTACAT
21640649 GGTTGCTGAAAAGTAAACGTGACCACG
1 GGTTGCTGAAAAGTAAACGTGACCACG
*
21640676 GGTTGCTGAAAAGTAAACGTGATCACG
1 GGTTGCTGAAAAGTAAACGTGACCACG
21640703 GGT
1 GGT
21640706 CATTCATCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.32, C:0.16, G:0.32, T:0.21
Consensus pattern (27 bp):
GGTTGCTGAAAAGTAAACGTGACCACG
Found at i:21642693 original size:11 final size:11
Alignment explanation
Indices: 21642679--21642722 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
21642669 AGATAAATAT
21642679 TATTTTATTAA
1 TATTTTATTAA
*
21642690 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
21642703 TATTTTATTAT
1 TATTTTATTAA
21642714 TATTTTATT
1 TATTTTATT
21642723 TAGTATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 15 0.54
12 6 0.21
13 7 0.25
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:21642890 original size:13 final size:13
Alignment explanation
Indices: 21642872--21642898 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21642862 AAAAGAATTT
21642872 CCATAGCTACCAA
1 CCATAGCTACCAA
21642885 CCATAGCTACCAA
1 CCATAGCTACCAA
21642898 C
1 C
21642899 AGTGTAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.41, G:0.07, T:0.15
Consensus pattern (13 bp):
CCATAGCTACCAA
Found at i:21643219 original size:21 final size:20
Alignment explanation
Indices: 21643181--21643243 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
21643171 ATTCAATTTC
21643181 TCAATCC-AAT-ATA-CATT
1 TCAATCCAAATAATATCATT
21643198 TCAATACCACAATAAT-TCATT
1 TCAAT-CCA-AATAATATCATT
*
21643219 T-AATTCAAATAATATCATT
1 TCAATCCAAATAATATCATT
21643238 TGCAAT
1 T-CAAT
21643244 TTCCATTTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
17 5 0.14
18 8 0.22
19 8 0.22
20 6 0.16
21 10 0.27
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TCAATCCAAATAATATCATT
Found at i:21643290 original size:16 final size:18
Alignment explanation
Indices: 21643253--21643290 Score: 55
Period size: 15 Copynumber: 2.3 Consensus size: 18
21643243 TTTCCATTTA
21643253 ATTCATGTACAGTTCAAT
1 ATTCATGTACAGTTCAAT
21643271 -TTCAT-TA-AGTTCAAT
1 ATTCATGTACAGTTCAAT
21643286 ATTCA
1 ATTCA
21643291 ATTCAATTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.42
16 6 0.32
17 5 0.26
ACGTcount: A:0.34, C:0.16, G:0.08, T:0.42
Consensus pattern (18 bp):
ATTCATGTACAGTTCAAT
Found at i:21643465 original size:51 final size:50
Alignment explanation
Indices: 21643400--21643542 Score: 164
Period size: 50 Copynumber: 2.8 Consensus size: 50
21643390 CAATGATGTT
* *
21643400 CGGTTCACATAGTAGCCTGCACATAGTACTACACACGTGA-TTGAA-ACTATC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCT-AACA-T-TC
* * * * * *
21643451 CGGTACGCATAGTAGCCTGCACATAGTTCTACAAATGCGACCTATCATTC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCTAACATTC
*
21643501 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACC
21643543 ATCACTTTCA
Statistics
Matches: 76, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
50 38 0.50
51 36 0.47
52 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (50 bp):
CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCTAACATTC
Found at i:21647660 original size:13 final size:13
Alignment explanation
Indices: 21647642--21647679 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
21647632 TGCAAATGAA
21647642 TCATTTCTCATTT
1 TCATTTCTCATTT
21647655 TCATTTCT-ATTT
1 TCATTTCTCATTT
*
21647667 CCATTTC-CATTT
1 TCATTTCTCATTT
21647679 T
1 T
21647680 GAGAAAACCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 14 0.64
13 8 0.36
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.61
Consensus pattern (13 bp):
TCATTTCTCATTT
Found at i:21647731 original size:45 final size:46
Alignment explanation
Indices: 21647680--21647769 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 46
21647670 TTTCCATTTT
* *
21647680 GAGAAAACCACATTTATTTTCAAAT-TATTTCATTTCTCTATTTCG
1 GAGAAAACCACAATCATTTTCAAATGTATTTCATTTCTCTATTTCG
* * *
21647725 GAGAAAACCATAATCATTTTTAAATGTTTTTCATTTCTCTATTTC
1 GAGAAAACCACAATCATTTTCAAATGTATTTCATTTCTCTATTTC
21647770 TATTCATTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
45 21 0.54
46 18 0.46
ACGTcount: A:0.31, C:0.17, G:0.07, T:0.46
Consensus pattern (46 bp):
GAGAAAACCACAATCATTTTCAAATGTATTTCATTTCTCTATTTCG
Found at i:21650677 original size:20 final size:20
Alignment explanation
Indices: 21650652--21650692 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
21650642 TAAGGTATAT
21650652 GTGTATGAAAACTAGTGAAA
1 GTGTATGAAAACTAGTGAAA
21650672 GTGTATGAAAACTAGTGAAA
1 GTGTATGAAAACTAGTGAAA
21650692 G
1 G
21650693 CATTTGGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.05, G:0.27, T:0.24
Consensus pattern (20 bp):
GTGTATGAAAACTAGTGAAA
Found at i:21651974 original size:18 final size:18
Alignment explanation
Indices: 21651947--21651988 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
21651937 ATACTTTATA
* *
21651947 ATTTTTTTTTGAAGTATT
1 ATTTTATTTTGAAGAATT
*
21651965 ATTTTATTTTTAAGAATT
1 ATTTTATTTTGAAGAATT
21651983 -TTTTAT
1 ATTTTAT
21651989 ATTTTTATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (18 bp):
ATTTTATTTTGAAGAATT
Found at i:21652587 original size:22 final size:22
Alignment explanation
Indices: 21652543--21652582 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
21652533 ATAATTTAAA
21652543 ATATAAAATTTTATTAATATGT
1 ATATAAAATTTTATTAATATGT
21652565 ATAT-AAA-TTTATTAATAT
1 ATATAAAATTTTATTAATAT
21652583 ATGTAAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.61
21 3 0.17
22 4 0.22
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (22 bp):
ATATAAAATTTTATTAATATGT
Found at i:21652718 original size:19 final size:20
Alignment explanation
Indices: 21652680--21652719 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
21652670 AAATATTTTT
*
21652680 AGTAAATCATTTTTTAAAAA
1 AGTAAATCATTTTCTAAAAA
21652700 AGTAAATCATTTTCTAAAAA
1 AGTAAATCATTTTCTAAAAA
21652720 TTATTTTCCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (20 bp):
AGTAAATCATTTTCTAAAAA
Found at i:21658437 original size:40 final size:43
Alignment explanation
Indices: 21658375--21658486 Score: 124
Period size: 44 Copynumber: 2.7 Consensus size: 43
21658365 ATGTAGTCTA
** *
21658375 CTCTACTGCAACTTCAAAGAGAT-GAGATC-A-T-TTTGATCCG
1 CTCTACTGCAACTTCAGGGAGATAG-GATCTATTATTTAATCCG
21658415 CTCTACTGCAACTTCAGGGAGATAGGATCTATTACTTTAATCCG
1 CTCTACTGCAACTTCAGGGAGATAGGATCTATTA-TTTAATCCG
* * *
21658459 CTCCAATACAACTTCAGGGAGATAGGAT
1 CTCTACTGCAACTTCAGGGAGATAGGAT
21658487 TATCGGCCTC
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
40 25 0.41
41 2 0.03
42 1 0.02
44 33 0.54
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (43 bp):
CTCTACTGCAACTTCAGGGAGATAGGATCTATTATTTAATCCG
Found at i:21658507 original size:44 final size:44
Alignment explanation
Indices: 21658423--21658526 Score: 111
Period size: 44 Copynumber: 2.4 Consensus size: 44
21658413 CGCTCTACTG
* * * *
21658423 CAACTTCAGGGAGATAGGATCTATTACTTTAATCCGCTCCAATA
1 CAACTTCAGGGAGATAGGATCTATGACCTCAATCCACTCCAATA
* * * *
21658467 CAACTTCAGGGAGATAGGAT-TATCGGCCTCAATCTACTCCACTG
1 CAACTTCAGGGAGATAGGATCTAT-GACCTCAATCCACTCCAATA
*
21658511 CAACCTCAGGGAGATA
1 CAACTTCAGGGAGATA
21658527 AAATTTGCCA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 3 0.06
44 47 0.94
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (44 bp):
CAACTTCAGGGAGATAGGATCTATGACCTCAATCCACTCCAATA
Found at i:21674031 original size:28 final size:27
Alignment explanation
Indices: 21673988--21674044 Score: 87
Period size: 28 Copynumber: 2.1 Consensus size: 27
21673978 TAGTTCATGT
21673988 CTTCTCCAACAATCAAACAGTGGGAGGC
1 CTTCTCCAACAATCAAACA-TGGGAGGC
* *
21674016 CTTCTCCAACAGTCAAACATTGGAGGC
1 CTTCTCCAACAATCAAACATGGGAGGC
21674043 CT
1 CT
21674045 CGAAAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 9 0.33
28 18 0.67
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (27 bp):
CTTCTCCAACAATCAAACATGGGAGGC
Found at i:21680443 original size:2 final size:2
Alignment explanation
Indices: 21680438--21680463 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21680428 ATTAAAAAAA
21680438 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
21680464 TAGAAAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:21688944 original size:60 final size:59
Alignment explanation
Indices: 21688827--21688944 Score: 173
Period size: 59 Copynumber: 2.0 Consensus size: 59
21688817 TTTACTAGTA
*
21688827 GTCACTCAACTATTAGTAAATTTCTTTTTTGACACTCAATTATGAAAAGTTACAAAATG
1 GTCACCCAACTATTAGTAAATTTCTTTTTTGACACTCAATTATGAAAAGTTACAAAATG
* * * * *
21688886 GTCACCCAATTATTAGTAAATTTCTTTTTTAGTCACTCAATTATTAATAGTTATAAAAT
1 GTCACCCAACTATTAGTAAATTTCTTTTTT-GACACTCAATTATGAAAAGTTACAAAAT
21688945 TTTTACTCTA
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
59 28 0.54
60 24 0.46
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.41
Consensus pattern (59 bp):
GTCACCCAACTATTAGTAAATTTCTTTTTTGACACTCAATTATGAAAAGTTACAAAATG
Found at i:21691886 original size:38 final size:38
Alignment explanation
Indices: 21691843--21691918 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
21691833 TGGCGACATT
* *
21691843 ATGAAAGTGGTTATCTACAGGCTCTACGAAGCGACACC
1 ATGAAAATGGTTATCTACAGGCTCTACGAAGCAACACC
* *
21691881 ATGAAAATGGTTATCTATAGGCTCTACGGAGCAACACC
1 ATGAAAATGGTTATCTACAGGCTCTACGAAGCAACACC
21691919 TTGGAAGAGG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (38 bp):
ATGAAAATGGTTATCTACAGGCTCTACGAAGCAACACC
Found at i:21702708 original size:12 final size:13
Alignment explanation
Indices: 21702691--21702719 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
21702681 TTTCACATTT
21702691 TTTTATTTTCA-A
1 TTTTATTTTCACA
21702703 TTTTATTTTCACA
1 TTTTATTTTCACA
21702716 TTTT
1 TTTT
21702720 TCTGTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTATTTTCACA
Found at i:21722219 original size:23 final size:20
Alignment explanation
Indices: 21722192--21722244 Score: 52
Period size: 23 Copynumber: 2.5 Consensus size: 20
21722182 TTTAAAAAGA
21722192 ACAATATTAAGGTTTATTTATT
1 ACAATATTAA-GTTTA-TTATT
* *
21722214 GACAATAATAATTTTATTATT
1 -ACAATATTAAGTTTATTATT
*
21722235 AAAATATTAA
1 ACAATATTAA
21722245 TGTAAAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 8 0.31
21 5 0.19
22 4 0.15
23 9 0.35
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (20 bp):
ACAATATTAAGTTTATTATT
Found at i:21722570 original size:13 final size:13
Alignment explanation
Indices: 21722552--21722577 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21722542 AATATATATA
21722552 TTATTTTAAAAAT
1 TTATTTTAAAAAT
21722565 TTATTTTAAAAAT
1 TTATTTTAAAAAT
21722578 CACATCTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTATTTTAAAAAT
Found at i:21722863 original size:11 final size:10
Alignment explanation
Indices: 21722844--21722927 Score: 52
Period size: 11 Copynumber: 8.4 Consensus size: 10
21722834 CCAGACGTGG
21722844 TTTTTAATAA
1 TTTTTAATAA
21722854 TTTTTAAATAA
1 TTTTT-AATAA
*
21722865 TTTTT--TTA
1 TTTTTAATAA
*
21722873 TTTTGAA-AA
1 TTTTTAATAA
* *
21722882 TAAATTTGAT-A
1 T--TTTTAATAA
21722893 TTTCTT-ATAA
1 TTT-TTAATAA
21722903 TTTTTAATAA
1 TTTTTAATAA
21722913 TTTTTAAATAA
1 TTTTT-AATAA
21722924 TTTT
1 TTTT
21722928 GTACCAAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 19
0.69 0.08 0.23
Matches are distributed among these distances:
8 6 0.11
9 7 0.12
10 20 0.35
11 24 0.42
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.60
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:21722927 original size:20 final size:20
Alignment explanation
Indices: 21722845--21722927 Score: 66
Period size: 20 Copynumber: 4.2 Consensus size: 20
21722835 CAGACGTGGT
21722845 TTTTAATAATTTTTAAATAA
1 TTTTAATAATTTTTAAATAA
* * *
21722865 TTTT-TTTATTTTGAAAATAA
1 TTTTAATAATTTT-TAAATAA
* *
21722885 ATTTGAT-ATTTCTT--ATAA
1 TTTTAATAATTT-TTAAATAA
21722903 TTTTTAATAATTTTTAAATAA
1 -TTTTAATAATTTTTAAATAA
21722924 TTTT
1 TTTT
21722928 GTACCAAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
18 4 0.08
19 13 0.27
20 25 0.52
21 6 0.12
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.59
Consensus pattern (20 bp):
TTTTAATAATTTTTAAATAA
Found at i:21728039 original size:46 final size:46
Alignment explanation
Indices: 21727947--21728046 Score: 109
Period size: 46 Copynumber: 2.2 Consensus size: 46
21727937 GGCGGTTTAT
* * *
21727947 CCACAT-T-TTTGTCTGGTAGCTTAATTGCAATTATAGTGGCTTGA
1 CCACATATATTTGTCTGGCAGCTTAACTGCAATTACAGTGGCTTGA
*
21727991 CCACATATATTTGTTCTGGCAGCTTAGCTGCAA-TACAGTGG-TTCGA
1 CCACATATATTTG-TCTGGCAGCTTAACTGCAATTACAGTGGCTT-GA
*
21728037 CCACACATAT
1 CCACATATAT
21728047 ATTATGATCT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
44 6 0.13
45 3 0.06
46 22 0.47
47 16 0.34
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (46 bp):
CCACATATATTTGTCTGGCAGCTTAACTGCAATTACAGTGGCTTGA
Found at i:21730242 original size:18 final size:17
Alignment explanation
Indices: 21730209--21730247 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
21730199 TTTTATAAAT
21730209 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
21730227 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
21730244 TGTG
1 TGTG
21730248 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:21730500 original size:23 final size:23
Alignment explanation
Indices: 21730465--21730540 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
21730455 AATGTTGTTG
*
21730465 ATCAATGGTAGCTTTAGCTACAT
1 ATCAGTGGTAGCTTTAGCTACAT
*
21730488 TTCAGTGGTAGC--TACGACTACAT
1 ATCAGTGGTAGCTTTA-G-CTACAT
* **
21730511 ATCAGTGGCAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTTAGCTACAT
21730534 ATCAGTG
1 ATCAGTG
21730541 TGGCACTTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
21 2 0.05
22 1 0.02
23 39 0.91
24 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTTAGCTACAT
Found at i:21737658 original size:18 final size:17
Alignment explanation
Indices: 21737625--21737663 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
21737615 TTTTATAAAT
21737625 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
21737643 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
21737660 TGTG
1 TGTG
21737664 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:21737915 original size:23 final size:23
Alignment explanation
Indices: 21737882--21737957 Score: 107
Period size: 23 Copynumber: 3.3 Consensus size: 23
21737872 AGTGTTGTTG
21737882 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * ** *
21737905 TTGAGTGGTAGCTAGGGCTATAT
1 ATCAGTGGTAGCTTCGGCTACAT
21737928 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
21737951 ATCAGTG
1 ATCAGTG
21737958 TGGCACTTGT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:21739694 original size:23 final size:23
Alignment explanation
Indices: 21739668--21739743 Score: 109
Period size: 23 Copynumber: 3.3 Consensus size: 23
21739658 ATAAGTGTCA
* *
21739668 CACTGATATATAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
21739691 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
21739714 CACTG-TAATGTAGCCGTAGCTAC
1 CACTGAT-ATGTAGCCGAAGCTAC
21739737 CACTGAT
1 CACTGAT
21739744 CAATAACACT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
22 1 0.02
23 46 0.96
24 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:21742581 original size:16 final size:16
Alignment explanation
Indices: 21742548--21742588 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
21742538 CGTGGTTAAA
*
21742548 TATTATTATTATTCTT
1 TATTATTATTATTATT
21742564 TATTATTATT-TCTATT
1 TATTATTATTAT-TATT
21742580 TATT-TTATT
1 TATTATTATT
21742589 GTTCGTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (16 bp):
TATTATTATTATTATT
Found at i:21755001 original size:87 final size:87
Alignment explanation
Indices: 21754899--21755074 Score: 316
Period size: 87 Copynumber: 2.0 Consensus size: 87
21754889 AGAGAAGTCG
* *
21754899 GATCATGACAGCTAACACAAAGGCCGAATCACATTGTCGATGGTGAATAAATGAGACTTTTCTTT
1 GATCATAACAGCTAACACAAAGGCCGAATCACATTGTCGATGGTGAATAAAGGAGACTTTTCTTT
21754964 TAAACTAAGAGAAAATGCCCTA
66 TAAACTAAGAGAAAATGCCCTA
* *
21754986 GATCATAACAGCTAACACAAATGCCGAATCACATTGTCGATGGTGAATAAAGGGGACTTTTCTTT
1 GATCATAACAGCTAACACAAAGGCCGAATCACATTGTCGATGGTGAATAAAGGAGACTTTTCTTT
21755051 TAAACTAAGAGAAAATGCCCTA
66 TAAACTAAGAGAAAATGCCCTA
21755073 GA
1 GA
21755075 CAAATATGAC
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 85 1.00
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (87 bp):
GATCATAACAGCTAACACAAAGGCCGAATCACATTGTCGATGGTGAATAAAGGAGACTTTTCTTT
TAAACTAAGAGAAAATGCCCTA
Found at i:21755197 original size:16 final size:16
Alignment explanation
Indices: 21755171--21755210 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
21755161 GGTTTGGGTG
*
21755171 GATTATTTCGAGTT-T
1 GATTTTTTCGAGTTAT
21755186 GAGTTTTTTCGAGTTAT
1 GA-TTTTTTCGAGTTAT
21755203 GATTTTTT
1 GATTTTTT
21755211 TAGGTTCGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 2 0.09
16 17 0.77
17 3 0.14
ACGTcount: A:0.17, C:0.05, G:0.20, T:0.57
Consensus pattern (16 bp):
GATTTTTTCGAGTTAT
Found at i:21755666 original size:12 final size:12
Alignment explanation
Indices: 21755649--21755673 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21755639 TGGGCGTAAA
21755649 GCGTCTGTAGGT
1 GCGTCTGTAGGT
21755661 GCGTCTGTAGGT
1 GCGTCTGTAGGT
21755673 G
1 G
21755674 GCTTCAGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.44, T:0.32
Consensus pattern (12 bp):
GCGTCTGTAGGT
Found at i:21763364 original size:6 final size:6
Alignment explanation
Indices: 21763353--21763382 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
21763343 TAGAAACATA
21763353 AAAATT AAAATT AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT
21763383 TTAGAAGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AAAATT
Found at i:21763598 original size:23 final size:22
Alignment explanation
Indices: 21763572--21763626 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
21763562 CTTTAACACA
*
21763572 TTATTTTAGTTCT-TATCGTTTTT
1 TTATTTTAGTTCTCTA--ATTTTT
*
21763595 TTATTTTA-ATCTCTAATTTTT
1 TTATTTTAGTTCTCTAATTTTT
21763616 TTATTTTAGTT
1 TTATTTTAGTT
21763627 AATACTTAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 13 0.48
22 4 0.15
23 10 0.37
ACGTcount: A:0.18, C:0.07, G:0.05, T:0.69
Consensus pattern (22 bp):
TTATTTTAGTTCTCTAATTTTT
Found at i:21781707 original size:46 final size:45
Alignment explanation
Indices: 21781655--21781742 Score: 110
Period size: 46 Copynumber: 1.9 Consensus size: 45
21781645 GACTCCATGG
21781655 ATTTTGA-AA-TTATA-TATTTTAACATGATTTTTAATATTTTTTAATA
1 ATTTTGATAATTTATACTATTTTAA-AT--TTTTTAA-ATTTTTTAATA
21781701 ATTTTGATAATTTATATCTATTTTAAATTTTTTAAATTTTTT
1 ATTTTGATAATTTATA-CTATTTTAAATTTTTTAAATTTTTT
21781743 TAGAATTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
46 14 0.37
47 9 0.24
48 5 0.13
49 2 0.05
50 8 0.21
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.60
Consensus pattern (45 bp):
ATTTTGATAATTTATACTATTTTAAATTTTTTAAATTTTTTAATA
Found at i:21782653 original size:28 final size:28
Alignment explanation
Indices: 21782600--21782655 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
21782590 GGCATAAGTG
* * *
21782600 TATATATTATGAATTTTTAAAGTTAAAA
1 TATATATTATGAATATTAAAAATTAAAA
21782628 TATATATTAT-AATATTAAAATATTAAAA
1 TATATATTATGAATATTAAAA-ATTAAAA
21782656 GTTAAAAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 8 0.33
28 16 0.67
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.45
Consensus pattern (28 bp):
TATATATTATGAATATTAAAAATTAAAA
Found at i:21782679 original size:5 final size:5
Alignment explanation
Indices: 21782671--21782714 Score: 88
Period size: 5 Copynumber: 8.8 Consensus size: 5
21782661 AAGTTAAGTA
21782671 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
21782715 ATAATTAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:21784078 original size:31 final size:33
Alignment explanation
Indices: 21784043--21784110 Score: 86
Period size: 31 Copynumber: 2.1 Consensus size: 33
21784033 CAAATGATGA
* *
21784043 GAATTGAGTATGGAATGAATGATGT-ATT-TAT
1 GAATTGAATATGGAATGAATAATGTCATTGTAT
* *
21784074 GAATTGAATATTGAATGACTAATGTCATTGTAT
1 GAATTGAATATGGAATGAATAATGTCATTGTAT
21784107 GAAT
1 GAAT
21784111 AAATGTGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 21 0.68
32 3 0.10
33 7 0.23
ACGTcount: A:0.37, C:0.03, G:0.22, T:0.38
Consensus pattern (33 bp):
GAATTGAATATGGAATGAATAATGTCATTGTAT
Done.