Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 45 of 135
Found at i:17766536 original size:91 final size:92
Alignment explanation
Indices: 17766381--17766564 Score: 361
Period size: 91 Copynumber: 2.0 Consensus size: 92
17766371 TTGTCAAATC
17766381 ACCTAAATTGACGTGACATACACGCGGATTGTCACTTGGATGACACATCAACATTTAATTAAAAT
1 ACCTAAATTGACGTGACATACACGCGGATTGTCACTTGGATGACACATCAACATTTAATTAAAAT
17766446 TTAAAAATTTTAAATTT-TCTTTAAAA
66 TTAAAAATTTTAAATTTATCTTTAAAA
17766472 ACCTAAATTGACGTGACATACACGCGGATTGTCACTTGGATGACACATCAACATTTAATTAAAAT
1 ACCTAAATTGACGTGACATACACGCGGATTGTCACTTGGATGACACATCAACATTTAATTAAAAT
17766537 TTAAAAATTTTAAATTTATCTTTAAAA
66 TTAAAAATTTTAAATTTATCTTTAAAA
17766564 A
1 A
17766565 TTAATAATCA
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
91 82 0.89
92 10 0.11
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (92 bp):
ACCTAAATTGACGTGACATACACGCGGATTGTCACTTGGATGACACATCAACATTTAATTAAAAT
TTAAAAATTTTAAATTTATCTTTAAAA
Found at i:17770386 original size:39 final size:38
Alignment explanation
Indices: 17770329--17770403 Score: 89
Period size: 40 Copynumber: 1.9 Consensus size: 38
17770319 AAATTTTTAA
*
17770329 TTTTTAATAATTAAAA-TTTAAAAATTATTTTTATATGC
1 TTTTTAATAATTAAAATTTTAAAAA-TAGTTTTATATGC
* *
17770367 TTTTTAGATAATTTTAATTTTTAAAAATAGTTTTATA
1 TTTTTA-ATAA-TTAAAATTTTAAAAATAGTTTTATA
17770404 ATTTTTATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
38 6 0.19
39 4 0.13
40 13 0.42
41 8 0.26
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (38 bp):
TTTTTAATAATTAAAATTTTAAAAATAGTTTTATATGC
Found at i:17770428 original size:38 final size:37
Alignment explanation
Indices: 17770322--17770428 Score: 94
Period size: 38 Copynumber: 2.8 Consensus size: 37
17770312 ATATAAGAAA
*
17770322 TTTT-TAATTTTTAATAA-TTAAAATTTAAAAATTAT
1 TTTTATAATTTTTAATAATTTAAAATTTAAAAATTAG
* **
17770357 TTTTATATGCTTTTTAGATAATTTTAATTTTTAAAAA-TAG
1 TTTTATA--ATTTTTA-ATAA-TTTAAAATTTAAAAATTAG
*
17770397 TTTTATAATTTTTATAAAATTTAAAAATTTAA
1 TTTTATAATTTTTA-ATAATTT-AAAATTTAA
17770429 TTAAATGCTG
Statistics
Matches: 56, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
35 4 0.07
36 2 0.04
37 3 0.05
38 22 0.39
39 4 0.07
40 9 0.16
41 12 0.21
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (37 bp):
TTTTATAATTTTTAATAATTTAAAATTTAAAAATTAG
Found at i:17775504 original size:16 final size:16
Alignment explanation
Indices: 17775464--17775507 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
17775454 AAAACACGCA
17775464 TATTTAAAATAACAAT
1 TATTTAAAATAACAAT
* *
17775480 T-TTAAAAAATAACCAT
1 TATT-TAAAATAACAAT
17775496 TATTTAAAATAA
1 TATTTAAAATAA
17775508 GCGTTTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 2 0.09
16 19 0.83
17 2 0.09
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (16 bp):
TATTTAAAATAACAAT
Found at i:17788544 original size:19 final size:18
Alignment explanation
Indices: 17788520--17788558 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
17788510 CTATTATAGC
17788520 TTTCTA-GGTACTTTGTCTT
1 TTTCTATGGTA-TTTGT-TT
17788539 TTTCTATGGTATTTGTTT
1 TTTCTATGGTATTTGTTT
17788557 TT
1 TT
17788559 CAGTTACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 11 0.58
20 4 0.21
ACGTcount: A:0.10, C:0.10, G:0.15, T:0.64
Consensus pattern (18 bp):
TTTCTATGGTATTTGTTT
Found at i:17822051 original size:39 final size:37
Alignment explanation
Indices: 17822008--17822091 Score: 87
Period size: 39 Copynumber: 2.2 Consensus size: 37
17821998 GCCCATTTTT
17822008 AAAATAAACATTAAAAATATTTTAAAAATAAAAAAATAA
1 AAAATAAACATTAAAAATATTTT-AAAATAAAAAAAT-A
** ** * * *
17822047 AAAATTTATTTTAAAAGTATTTTCAAATTAAAAAATA
1 AAAATAAACATTAAAAATATTTTAAAATAAAAAAATA
17822084 AAAATAAA
1 AAAATAAA
17822092 AATATATATT
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
37 7 0.19
38 11 0.31
39 18 0.50
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.31
Consensus pattern (37 bp):
AAAATAAACATTAAAAATATTTTAAAATAAAAAAATA
Found at i:17824863 original size:21 final size:21
Alignment explanation
Indices: 17824837--17824900 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
17824827 CTGACCTTTA
17824837 TACTATTTGCTCCTTTTTGCC
1 TACTATTTGCTCCTTTTTGCC
17824858 TACTATTT--T-C--TTT--C
1 TACTATTTGCTCCTTTTTGCC
*
17824872 TGCTATTTGCTCCTTTTTGCC
1 TACTATTTGCTCCTTTTTGCC
17824893 TACTATTT
1 TACTATTT
17824901 TCTGTCTGCC
Statistics
Matches: 34, Mismatches: 2, Indels: 14
0.68 0.04 0.28
Matches are distributed among these distances:
14 8 0.24
16 4 0.12
17 1 0.03
18 1 0.03
19 4 0.12
21 16 0.47
ACGTcount: A:0.11, C:0.25, G:0.08, T:0.56
Consensus pattern (21 bp):
TACTATTTGCTCCTTTTTGCC
Found at i:17824878 original size:35 final size:35
Alignment explanation
Indices: 17824839--17824909 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
17824829 GACCTTTATA
*
17824839 CTATTTGCTCCTTTTTGCCTACTATTTTCTTTCTG
1 CTATTTGCTCCTTTTTGCCTACTATTTTCTGTCTG
17824874 CTATTTGCTCCTTTTTGCCTACTATTTTCTGTCTG
1 CTATTTGCTCCTTTTTGCCTACTATTTTCTGTCTG
17824909 C
1 C
17824910 CTTTTCTTGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.08, C:0.27, G:0.10, T:0.55
Consensus pattern (35 bp):
CTATTTGCTCCTTTTTGCCTACTATTTTCTGTCTG
Found at i:17846197 original size:2 final size:2
Alignment explanation
Indices: 17846147--17846181 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
17846137 ATGAATGTAA
17846147 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
17846182 AAACAAACAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17848300 original size:24 final size:25
Alignment explanation
Indices: 17848254--17848305 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
17848244 TAGTCAAATA
*
17848254 AAAATCTATAAAAAAATGTTAT-AT
1 AAAATCTATAAAAAAATGATATAAT
*
17848278 AAAATCATATAAACAAAT-ATATAAT
1 AAAATC-TATAAAAAAATGATATAAT
17848303 AAA
1 AAA
17848306 GCTAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (25 bp):
AAAATCTATAAAAAAATGATATAAT
Found at i:17854222 original size:79 final size:81
Alignment explanation
Indices: 17854089--17854242 Score: 276
Period size: 79 Copynumber: 1.9 Consensus size: 81
17854079 AGGAAAAATC
*
17854089 TGATTTGTCATTTTCCTATTAAAAAGGGATAGGGATGATGTGGAATCACAATTTCATACAATTCC
1 TGATTTGTCATTTTCCTATTAAAAAGGGATAGGGATGATGTGGAATCACAATTTCATACAATCCC
17854154 TTCTCTTTTGGCATAA
66 TTCTCTTTTGGCATAA
*
17854170 TGATTTGTCATTTT-CTATTGAAAA-GGATAGGGATGATGTGGAATCACAATTTCATACAATCCC
1 TGATTTGTCATTTTCCTATTAAAAAGGGATAGGGATGATGTGGAATCACAATTTCATACAATCCC
17854233 TTCTCTTTTG
66 TTCTCTTTTG
17854243 ATATAATGCC
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
79 48 0.68
80 9 0.13
81 14 0.20
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.39
Consensus pattern (81 bp):
TGATTTGTCATTTTCCTATTAAAAAGGGATAGGGATGATGTGGAATCACAATTTCATACAATCCC
TTCTCTTTTGGCATAA
Found at i:17859751 original size:16 final size:16
Alignment explanation
Indices: 17859730--17859760 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
17859720 CTTTCAGTCG
17859730 GAGAAGAAAGAGACAA
1 GAGAAGAAAGAGACAA
17859746 GAGAAGAAAGAGACA
1 GAGAAGAAAGAGACA
17859761 GAAGTGTGAA
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:0.61, C:0.06, G:0.32, T:0.00
Consensus pattern (16 bp):
GAGAAGAAAGAGACAA
Found at i:17878497 original size:127 final size:127
Alignment explanation
Indices: 17878362--17878631 Score: 531
Period size: 127 Copynumber: 2.1 Consensus size: 127
17878352 ATCTTATATA
17878362 TATATATATATATATTGTTAGAGTTGTGAGACTCGAATATCATATTATTGTTTTTCAACATTAGT
1 TATATATATATATATTGTTAGAGTTGTGAGACTCGAATATCATATTATTGTTTTTCAACATTAGT
17878427 AAATATGCTGTGGTTTCTTCCGATGGTTTTTAACTTAAAATCTGCGTGTTCAGCATTCAACG
66 AAATATGCTGTGGTTTCTTCCGATGGTTTTTAACTTAAAATCTGCGTGTTCAGCATTCAACG
17878489 TATATATATATATATTGTTAGAGTTGTGAGACTCGAATATCATATTATTGTTTTTCAACATTAGT
1 TATATATATATATATTGTTAGAGTTGTGAGACTCGAATATCATATTATTGTTTTTCAACATTAGT
17878554 AAATATGCTGTGGTTTCTTCCGATGGTTTTTAACTTAAAATCTGCGTGTTCAGCATTCAACG
66 AAATATGCTGTGGTTTCTTCCGATGGTTTTTAACTTAAAATCTGCGTGTTCAGCATTCAACG
17878616 TATAGTATATATATAT
1 TATA-TATATATATAT
17878632 ATAGTCTCAT
Statistics
Matches: 142, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
127 131 0.92
128 11 0.08
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.43
Consensus pattern (127 bp):
TATATATATATATATTGTTAGAGTTGTGAGACTCGAATATCATATTATTGTTTTTCAACATTAGT
AAATATGCTGTGGTTTCTTCCGATGGTTTTTAACTTAAAATCTGCGTGTTCAGCATTCAACG
Found at i:17885533 original size:46 final size:46
Alignment explanation
Indices: 17885455--17885639 Score: 316
Period size: 46 Copynumber: 4.0 Consensus size: 46
17885445 ACATTGCTAT
* * *
17885455 AACTCAGTATGGTTTTCTTCACGGAAATACCATGCCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
* * *
17885501 AACTCAGTATGGTTTTCCTCACTGAAACACCATACCTACTTTTCAT
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
17885547 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
17885593 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
17885639 A
1 A
17885640 CTTTGTCATG
Statistics
Matches: 131, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 131 1.00
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.34
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
Found at i:17886914 original size:16 final size:17
Alignment explanation
Indices: 17886868--17886915 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
17886858 AAATTCTTTT
*
17886868 TAAACCACAAAATTCAA
1 TAAATCACAAAATTCAA
*
17886885 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAA
*
17886902 TAATTCA-AAAATTC
1 TAAATCACAAAATTC
17886916 TTCTAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 7 0.25
17 21 0.75
ACGTcount: A:0.54, C:0.21, G:0.00, T:0.25
Consensus pattern (17 bp):
TAAATCACAAAATTCAA
Found at i:17896959 original size:6 final size:6
Alignment explanation
Indices: 17896948--17896973 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
17896938 GTGCCTCTCT
17896948 TGCACA TGCACA TGCACA TGCACA TG
1 TGCACA TGCACA TGCACA TGCACA TG
17896974 GTTAATGCAA
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:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (6 bp):
TGCACA
Found at i:17916154 original size:19 final size:19
Alignment explanation
Indices: 17916125--17916167 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
17916115 AAAATATGGG
17916125 AAATG-TATGTGTATTTTA
1 AAATGTTATGTGTATTTTA
17916143 AAATGTTATGTGTATTTTA
1 AAATGTTATGTGTATTTTA
17916162 AAATGT
1 AAATGT
17916168 GCATGCATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (19 bp):
AAATGTTATGTGTATTTTA
Found at i:17919482 original size:12 final size:12
Alignment explanation
Indices: 17919465--17919489 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17919455 TAACCTCTCT
17919465 AAATTTTATTAA
1 AAATTTTATTAA
17919477 AAATTTTATTAA
1 AAATTTTATTAA
17919489 A
1 A
17919490 CAACTTCAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAATTTTATTAA
Found at i:17920281 original size:96 final size:97
Alignment explanation
Indices: 17920117--17920309 Score: 379
Period size: 96 Copynumber: 2.0 Consensus size: 97
17920107 TATCATGTTG
17920117 TAATATTTTAGTCACTGAGTTGTTAATTACCATTAACGGTATAATAATAAATTGATGTTACATGT
1 TAATATTTTAGTCACTGAGTTGTTAATTACCATTAACGGTATAATAATAAATTGATGTTACATGT
17920182 TAAATCATCATTTCAAAC-AAAATTTTAGGTT
66 TAAATCATCATTTCAAACAAAAATTTTAGGTT
17920213 TAATATTTTAGTCACTGAGTTGTTAATTACCATTAACGGTATAATAATAAATTGATGTTACATGT
1 TAATATTTTAGTCACTGAGTTGTTAATTACCATTAACGGTATAATAATAAATTGATGTTACATGT
17920278 TAAATCATCATTTCAAACAAAAATTTTAGGTT
66 TAAATCATCATTTCAAACAAAAATTTTAGGTT
17920310 AATTTATACA
Statistics
Matches: 96, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
96 83 0.86
97 13 0.14
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.40
Consensus pattern (97 bp):
TAATATTTTAGTCACTGAGTTGTTAATTACCATTAACGGTATAATAATAAATTGATGTTACATGT
TAAATCATCATTTCAAACAAAAATTTTAGGTT
Found at i:17921172 original size:24 final size:25
Alignment explanation
Indices: 17921112--17921173 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 25
17921102 CTGTTAGCTT
17921112 ATTATTTTTAATTCATAAATTTAAAA
1 ATTATTTTTAA-TCATAAATTTAAAA
** *
17921138 AACATTATTAAT-AT-AATTTAAACA
1 ATTATTTTTAATCATAAATTTAAA-A
17921162 ATTATTTTTAAT
1 ATTATTTTTAAT
17921174 TTCTTGTATA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
23 8 0.28
24 12 0.41
25 1 0.03
26 8 0.28
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (25 bp):
ATTATTTTTAATCATAAATTTAAAA
Found at i:17926756 original size:3 final size:3
Alignment explanation
Indices: 17926748--17926773 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
17926738 TCAATGGGCA
17926748 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
17926774 CAACGTGAAA
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:17939830 original size:25 final size:25
Alignment explanation
Indices: 17939794--17939844 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 25
17939784 AAAGGATTTT
17939794 GCTTTGGCTTTGAGAGAGAGAGAGA
1 GCTTTGGCTTTGAGAGAGAGAGAGA
17939819 GCTTTGAG-TTTGAGAGAGAGAGAGA
1 GCTTTG-GCTTTGAGAGAGAGAGAGA
17939844 G
1 G
17939845 AGAGAGAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 24 0.96
26 1 0.04
ACGTcount: A:0.29, C:0.06, G:0.41, T:0.24
Consensus pattern (25 bp):
GCTTTGGCTTTGAGAGAGAGAGAGA
Found at i:17939835 original size:2 final size:2
Alignment explanation
Indices: 17939830--17939871 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
17939820 CTTTGAGTTT
17939830 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
17939872 CCCTTTCAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:17946721 original size:23 final size:23
Alignment explanation
Indices: 17946695--17946743 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
17946685 AAGTATATAG
* *
17946695 AAAAGAATAGATAAATTTTTTTTA
1 AAAAAAATA-ATAAATTTATTTTA
*
17946719 AAAAAAATAATACATTTATTTTA
1 AAAAAAATAATAAATTTATTTTA
17946742 AA
1 AA
17946744 CTGGAGTAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (23 bp):
AAAAAAATAATAAATTTATTTTA
Found at i:17950156 original size:21 final size:21
Alignment explanation
Indices: 17950132--17950175 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
17950122 AATTGCTGTG
*
17950132 GCTGCTGCCACCGCAGCTGCA
1 GCTGATGCCACCGCAGCTGCA
* **
17950153 GCTGATGCCGCCGTGGCTGCA
1 GCTGATGCCACCGCAGCTGCA
17950174 GC
1 GC
17950176 AAAGGCGGCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.11, C:0.39, G:0.34, T:0.16
Consensus pattern (21 bp):
GCTGATGCCACCGCAGCTGCA
Found at i:17968330 original size:56 final size:56
Alignment explanation
Indices: 17968253--17968359 Score: 153
Period size: 56 Copynumber: 1.9 Consensus size: 56
17968243 ATTAGCAGTC
* * *
17968253 ACCTAATTATTAATAATTTTTTTAGTT-ATTCAATTATGAAAAGTTATAAAATAGTT
1 ACCTAATTATTAATAAATTTTTT-GTTCACTCAATTATAAAAAGTTATAAAATAGTT
* *
17968309 ACCTAATTATTAGTAAATTTTTTTTTCACTCAATTATAAAAAGTTATAAAA
1 ACCTAATTATTAATAAATTTTTTGTTCACTCAATTATAAAAAGTTATAAAA
17968360 CGGTGACCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
55 2 0.04
56 43 0.96
ACGTcount: A:0.42, C:0.07, G:0.06, T:0.45
Consensus pattern (56 bp):
ACCTAATTATTAATAAATTTTTTGTTCACTCAATTATAAAAAGTTATAAAATAGTT
Found at i:17971166 original size:19 final size:18
Alignment explanation
Indices: 17971126--17971166 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 18
17971116 ATAACTCTAA
17971126 AATAGTAACAAAATTAAC
1 AATAGTAACAAAATTAAC
17971144 AATAG-AACAAAAGTTATAC
1 AATAGTAACAAAA-TTA-AC
17971163 AATA
1 AATA
17971167 TTTAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.33
18 8 0.38
19 6 0.29
ACGTcount: A:0.61, C:0.10, G:0.07, T:0.22
Consensus pattern (18 bp):
AATAGTAACAAAATTAAC
Found at i:17975244 original size:366 final size:367
Alignment explanation
Indices: 17974572--17975304 Score: 1459
Period size: 366 Copynumber: 2.0 Consensus size: 367
17974562 TTTTAGATCA
17974572 ACATTATATTAGTTTGAAATTTTACCTAACAAATACAATTATATTAATAAATTTAATGGCTCAAT
1 ACATTATATTAGTTTGAAATTTTACCTAACAAATACAATTATATTAATAAATTTAATGGCTCAAT
17974637 CATTAAAATATTAATCATAAAAGGAGATATGAAATAGTGTAAAACTATTCTAATTTTACATGGAT
66 CATTAAAATATTAATCATAAAAGGAGATATGAAATAGTGTAAAACTATTCTAATTTTACATGGAT
17974702 GTAAGTGAATTCTTCTCTCAAAAATAAAACATGTAAAACTGATTACTAGTTAACTTCTTTCTAAA
131 GTAAGTGAATTCTTCTCTCAAAAATAAAACATGTAAAACTGATTACTAGTTAACTTCTTTCTAAA
17974767 TAATAAAAATGTTTAAATTTAGTTTTAAAATATATTTTAATGTTCTAAATATTACAAGTGTATGG
196 TAATAAAAATGTTTAAATTTAGTTTTAAAATATATTTTAATGTTCTAAATATTACAAGTGTATGG
17974832 CAATGTGAGCGAAAAATATGTTAATAAAAAATTTATATAGAAAAGAAATAAGTTAGTTTCAAAAG
261 CAATGTGAGCGAAAAATATGTTAATAAAAAATTTATATAGAAAAGAAATAAGTTAGTTTCAAAAG
17974897 GAAAAAAAGTAAGTTGAGACTTTGGAGGGTT-AAATATAATT
326 GAAAAAAAGTAAGTTGAGACTTTGGAGGGTTAAAATATAATT
17974938 ACATTATATTAGTTTGAAATTTTACCTAACAAATACAATTATATTAATAAATTTAATGGCTCAAT
1 ACATTATATTAGTTTGAAATTTTACCTAACAAATACAATTATATTAATAAATTTAATGGCTCAAT
17975003 CATTAAAATATTAATCATAAAAGGAGATATGAAATAGTGTAAAACTATTCTAATTTTACATGGAT
66 CATTAAAATATTAATCATAAAAGGAGATATGAAATAGTGTAAAACTATTCTAATTTTACATGGAT
17975068 GTAAGTGAATTCTTCTCTCAAAAATAAAACATGTAAAACTGATTACTAGTTAACTTCTTTCTAAA
131 GTAAGTGAATTCTTCTCTCAAAAATAAAACATGTAAAACTGATTACTAGTTAACTTCTTTCTAAA
17975133 TAATAAAAATGTTTAAATTTAGTTTTAAAATATATTTTAATGTTCTAAATATTACAAGTGTATGG
196 TAATAAAAATGTTTAAATTTAGTTTTAAAATATATTTTAATGTTCTAAATATTACAAGTGTATGG
17975198 CAATGTGAGCGAAAAATATGTTAATAAAAAATTTATATAGAAAAGAAATAAGTTAGTTTCAAAAG
261 CAATGTGAGCGAAAAATATGTTAATAAAAAATTTATATAGAAAAGAAATAAGTTAGTTTCAAAAG
17975263 GAAAAAAAGTAAGTTGAGACTTTGGAGGGTTAAAATATAATT
326 GAAAAAAAGTAAGTTGAGACTTTGGAGGGTTAAAATATAATT
17975305 TTGTTAATAT
Statistics
Matches: 366, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
366 356 0.97
367 10 0.03
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.35
Consensus pattern (367 bp):
ACATTATATTAGTTTGAAATTTTACCTAACAAATACAATTATATTAATAAATTTAATGGCTCAAT
CATTAAAATATTAATCATAAAAGGAGATATGAAATAGTGTAAAACTATTCTAATTTTACATGGAT
GTAAGTGAATTCTTCTCTCAAAAATAAAACATGTAAAACTGATTACTAGTTAACTTCTTTCTAAA
TAATAAAAATGTTTAAATTTAGTTTTAAAATATATTTTAATGTTCTAAATATTACAAGTGTATGG
CAATGTGAGCGAAAAATATGTTAATAAAAAATTTATATAGAAAAGAAATAAGTTAGTTTCAAAAG
GAAAAAAAGTAAGTTGAGACTTTGGAGGGTTAAAATATAATT
Found at i:17979410 original size:1 final size:1
Alignment explanation
Indices: 17979404--17979428 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
17979394 AGCGTGTTTT
17979404 GGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGG
17979429 NNNNNNNGGG
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:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:17984147 original size:15 final size:17
Alignment explanation
Indices: 17984127--17984163 Score: 60
Period size: 15 Copynumber: 2.3 Consensus size: 17
17984117 ACAAGTAAGA
17984127 TTTAAATATT-TC-TTT
1 TTTAAATATTATCATTT
17984142 TTTAAATATTATCATTT
1 TTTAAATATTATCATTT
17984159 TTTAA
1 TTTAA
17984164 TTTTTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 10 0.50
16 2 0.10
17 8 0.40
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTAAATATTATCATTT
Found at i:17989126 original size:61 final size:61
Alignment explanation
Indices: 17989031--17989154 Score: 230
Period size: 61 Copynumber: 2.0 Consensus size: 61
17989021 AGCCAATCTT
*
17989031 GTGTTTATCATTAGAGAAAAGACTAAATTAAGCAAGATTATTTTTCAAGGATTTTTATGTG
1 GTGTTTAGCATTAGAGAAAAGACTAAATTAAGCAAGATTATTTTTCAAGGATTTTTATGTG
*
17989092 GTGTTTAGCATTAGAGAAAAGACTGAATTAAGCAAGATTATTTTTCAAGGATTTTTATGTG
1 GTGTTTAGCATTAGAGAAAAGACTAAATTAAGCAAGATTATTTTTCAAGGATTTTTATGTG
17989153 GT
1 GT
17989155 CTACTTATCT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.39
Consensus pattern (61 bp):
GTGTTTAGCATTAGAGAAAAGACTAAATTAAGCAAGATTATTTTTCAAGGATTTTTATGTG
Found at i:18011701 original size:78 final size:78
Alignment explanation
Indices: 18011572--18011728 Score: 287
Period size: 78 Copynumber: 2.0 Consensus size: 78
18011562 ATCTAAAGTA
* *
18011572 AGCAAAGTTCGAGGAAAAACAAAGGCAAACACTATCAAAGCTAAAAAGTAAAACCCCAAACGGAT
1 AGCAAAGTTCGAGGAAAAACAAAGGCAAACACTACCAAACCTAAAAAGTAAAACCCCAAACGGAT
18011637 ACTCAACATTTCC
66 ACTCAACATTTCC
*
18011650 AGCAAAGTTCGAGGAAAAACTAAGGCAAACACTACCAAACCTAAAAAGTAAAACCCCAAACGGAT
1 AGCAAAGTTCGAGGAAAAACAAAGGCAAACACTACCAAACCTAAAAAGTAAAACCCCAAACGGAT
18011715 ACTCAACATTTCC
66 ACTCAACATTTCC
18011728 A
1 A
18011729 TCCAAACCAA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.48, C:0.24, G:0.13, T:0.14
Consensus pattern (78 bp):
AGCAAAGTTCGAGGAAAAACAAAGGCAAACACTACCAAACCTAAAAAGTAAAACCCCAAACGGAT
ACTCAACATTTCC
Found at i:18027798 original size:108 final size:108
Alignment explanation
Indices: 18027654--18028602 Score: 1898
Period size: 108 Copynumber: 8.8 Consensus size: 108
18027644 ATATATTTAC
18027654 CAAAAAAAAATTATGAATGTATCCATCAATATTTGGTTCAATTATAAATATGTGATTTATTTTTT
1 CAAAAAAAAATTATGAATGTATCCATCAATATTTGGTTCAATTATAAATATGTGATTTATTTTTT
18027719 AATTTTTTATTTAGAAATTTTGTATAAAAATATGAAACAAAAA
66 AATTTTTTATTTAGAAATTTTGTATAAAAATATGAAACAAAAA
18027762 CAAAAAAAAATTATGAATGTATCCATCAATATTTGGTTCAATTATAAATATGTGATTTATTTTTT
1 CAAAAAAAAATTATGAATGTATCCATCAATATTTGGTTCAATTATAAATATGTGATTTATTTTTT
18027827 AATTTTTTATTTAGAAATTTTGTATAAAAATATGAAACAAAAA
66 AATTTTTTATTTAGAAATTTTGTATAAAAATATGAAACAAAAA
18027870 CAAAAAAAAATTATGAATGTATCCATCAATATTTGGTTCAATTATAAATATGTGATTTATTTTTT
1 CAAAAAAAAATTATGAATGTATCCATCAATATTTGGTTCAATTATAAATATGTGATTTATTTTTT
18027935 AATTTTTTATTTAGAAATTTTGTATAAAAATATGAAACAAAAA
66 AATTTTTTATTTAGAAATTTTGTATAAAAATATGAAACAAAAA
18027978 CAAAAAAAAATTATGAATGTATCCATCAATATTTGGTTCAATTATAAATATGTGATTTATTTTTT
1 CAAAAAAAAATTATGAATGTATCCATCAATATTTGGTTCAATTATAAATATGTGATTTATTTTTT
18028043 AATTTTTTATTTAGAAATTTTGTATAAAAATATGAAACAAAAA
66 AATTTTTTATTTAGAAATTTTGTATAAAAATATGAAACAAAAA
18028086 CAAAAAAAAATTATGAATGTATCCATCAATATTTGGTTCAATTATAAATATGTGATTTATTTTTT
1 CAAAAAAAAATTATGAATGTATCCATCAATATTTGGTTCAATTATAAATATGTGATTTATTTTTT
18028151 AATTTTTTATTTAGAAATTTTGTATAAAAATATGAAACAAAAA
66 AATTTTTTATTTAGAAATTTTGTATAAAAATATGAAACAAAAA
18028194 CAAAAAAAAATTATGAATGTATCCATCAATATTTGGTTCAATTATAAATATGTGATTTATTTTTT
1 CAAAAAAAAATTATGAATGTATCCATCAATATTTGGTTCAATTATAAATATGTGATTTATTTTTT
18028259 AATTTTTTATTTAGAAATTTTGTATAAAAATATGAAACAAAAA
66 AATTTTTTATTTAGAAATTTTGTATAAAAATATGAAACAAAAA
18028302 CAAAAAAAAATTATGAATGTATCCATCAATATTTGGTTCAATTATAAATATGTGATTTATTTTTT
1 CAAAAAAAAATTATGAATGTATCCATCAATATTTGGTTCAATTATAAATATGTGATTTATTTTTT
18028367 AATTTTTTATTTAGAAATTTTGTATAAAAATATGAAACAAAAA
66 AATTTTTTATTTAGAAATTTTGTATAAAAATATGAAACAAAAA
18028410 CAAAAAAAAATTATGAATGTATCCATCAATATTTGGTTCAATTATAAATATGTGATTTATTTTTT
1 CAAAAAAAAATTATGAATGTATCCATCAATATTTGGTTCAATTATAAATATGTGATTTATTTTTT
18028475 AATTTTTTATTTAGAAATTTTGTATAAAAATATGAAACAAAAA
66 AATTTTTTATTTAGAAATTTTGTATAAAAATATGAAACAAAAA
18028518 CAAAAAAAAATTATGAATGTATCCATCAATATTTGGTTCAATTATAAATATGTGATTTATTTTTT
1 CAAAAAAAAATTATGAATGTATCCATCAATATTTGGTTCAATTATAAATATGTGATTTATTTTTT
18028583 AATTTTTTATTTAGAAATTT
66 AATTTTTTATTTAGAAATTT
18028603 CCACCATTGC
Statistics
Matches: 841, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 841 1.00
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (108 bp):
CAAAAAAAAATTATGAATGTATCCATCAATATTTGGTTCAATTATAAATATGTGATTTATTTTTT
AATTTTTTATTTAGAAATTTTGTATAAAAATATGAAACAAAAA
Found at i:18029224 original size:43 final size:43
Alignment explanation
Indices: 18029116--18029259 Score: 188
Period size: 42 Copynumber: 3.3 Consensus size: 43
18029106 ACGTCGCTAA
* *
18029116 CTTTTGCGGCGCTTACAGAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTA-GGAAAAAAACGCCGCTAAAGATCATGTT
*
18029160 CTTTAGCGGCGCTTAGG-AAAAAACGCTGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAGATCATGTT
*
18029202 CTTTAGCGGCGCTTAGGAAAAAAACACCGCTAAA-AGT-AGTGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAGA-TCA-TGTT
18029245 CTTTCA-CGGCGCTTA
1 CTTT-AGCGGCGCTTA
18029260 CTTCACAAAC
Statistics
Matches: 91, Mismatches: 5, Indels: 9
0.87 0.05 0.09
Matches are distributed among these distances:
42 43 0.47
43 33 0.36
44 15 0.16
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (43 bp):
CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAGATCATGTT
Found at i:18035032 original size:115 final size:115
Alignment explanation
Indices: 18034830--18035641 Score: 1509
Period size: 115 Copynumber: 7.1 Consensus size: 115
18034820 TATTTGTGGC
* * *
18034830 GTTTTTAAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTCGTTAC-GATTAAAGGC
1 GTTTTTTAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTCACAG-TTAAAGGC
18034894 AATTTGTGGCGTTTCTTCGTAAAACGCCGGTAATATATCACTTTTAGCGGT
65 AATTTGTGGCGTTTCTTCGTAAAACGCCGGTAATATATCACTTTTAGCGGT
18034945 GTTTTTTAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTCACAGTTAAAGGCA
1 GTTTTTTAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTCACAGTTAAAGGCA
18035010 ATTTGTGGCGTTTCTTCGTAAAACGCCGGTAATATATCACTTTTAGCGGT
66 ATTTGTGGCGTTTCTTCGTAAAACGCCGGTAATATATCACTTTTAGCGGT
18035060 GTTTTTTAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTCACAGTTAAAGGCA
1 GTTTTTTAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTCACAGTTAAAGGCA
18035125 ATTTGTGGCGTTTCTTCGTAAAACGCCGGTAATATATCACTTTTAGCGGT
66 ATTTGTGGCGTTTCTTCGTAAAACGCCGGTAATATATCACTTTTAGCGGT
18035175 GTTTTTTAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTCACAGTTAAAGGCA
1 GTTTTTTAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTCACAGTTAAAGGCA
18035240 ATTTGTGGCGTTTCTTCGTAAAACGCCGGTAATATATCACTTTTAGCGGT
66 ATTTGTGGCGTTTCTTCGTAAAACGCCGGTAATATATCACTTTTAGCGGT
18035290 GTTTTTTAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTCACAGTTAAAGGCA
1 GTTTTTTAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTCACAGTTAAAGGCA
18035355 ATTTGTGGCGTTTCTTCGTAAAACGCCGGTAATATATCACTTTTAGCGGT
66 ATTTGTGGCGTTTCTTCGTAAAACGCCGGTAATATATCACTTTTAGCGGT
18035405 GTTTTTTAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTCACAGTTAAAGGCA
1 GTTTTTTAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTCACAGTTAAAGGCA
*
18035470 ATTTGTGGCGTTTCTTCGTAAAACGCCGGTAATATATCACTTTTAGCGGC
66 ATTTGTGGCGTTTCTTCGTAAAACGCCGGTAATATATCACTTTTAGCGGT
*
18035520 GTTTTTTAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTCACAGTTAAAGGAA
1 GTTTTTTAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTCACAGTTAAAGGCA
** * * **
18035585 ATTTGTGGCGTTTCTTCACAAAACGCCGGTAATATATGACCTTTAGCGAC
66 ATTTGTGGCGTTTCTTCGTAAAACGCCGGTAATATATCACTTTTAGCGGT
18035635 GTTTTTT
1 GTTTTTT
18035642 CTGAAGCGCC
Statistics
Matches: 686, Mismatches: 10, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
115 685 1.00
116 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (115 bp):
GTTTTTTAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTCACAGTTAAAGGCA
ATTTGTGGCGTTTCTTCGTAAAACGCCGGTAATATATCACTTTTAGCGGT
Found at i:18036148 original size:21 final size:21
Alignment explanation
Indices: 18036114--18036174 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
18036104 AATCTTAAAT
* *
18036114 CCTAAACGCCAAACCTAAAAC
1 CCTAAACTCTAAACCTAAAAC
*
18036135 CCTAAACTCTAAA-CTGTAAAC
1 CCTAAACTCTAAACCT-AAAAC
18036156 CCTAAA-TCATAAACCTAAA
1 CCTAAACTC-TAAACCTAAA
18036175 CCATATTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 4 0.12
21 27 0.82
22 2 0.06
ACGTcount: A:0.48, C:0.31, G:0.03, T:0.18
Consensus pattern (21 bp):
CCTAAACTCTAAACCTAAAAC
Found at i:18036776 original size:75 final size:77
Alignment explanation
Indices: 18036639--18036782 Score: 202
Period size: 75 Copynumber: 1.9 Consensus size: 77
18036629 CCGCTAAAGT
* * * *
18036639 AAGCATTAGCGGCGCTTTACTAGAAAACGCTGCTAACGCCACTGAAAGTTAAGAAAACGGTGCCG
1 AAGCAATAGCGGCGCTTCACTAGAAAACGCCGCTAACGCCACTGAAAGATAAGAAAACGGTGCCG
18036704 TTGGGCACCCCC
66 TTGGGCACCCCC
* * **
18036716 AAGCAATAGCGGCGCTTCACTA-AAAACGCCGCTAAGGCCTC-GAAAGATCTGAAAACGGTGCCG
1 AAGCAATAGCGGCGCTTCACTAGAAAACGCCGCTAACGCCACTGAAAGATAAGAAAACGGTGCCG
18036779 TTGG
66 TTGG
18036783 ACATATGTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
75 23 0.39
76 16 0.27
77 20 0.34
ACGTcount: A:0.31, C:0.26, G:0.26, T:0.17
Consensus pattern (77 bp):
AAGCAATAGCGGCGCTTCACTAGAAAACGCCGCTAACGCCACTGAAAGATAAGAAAACGGTGCCG
TTGGGCACCCCC
Found at i:18036988 original size:72 final size:70
Alignment explanation
Indices: 18036886--18037078 Score: 199
Period size: 72 Copynumber: 2.7 Consensus size: 70
18036876 TGAGAAAATG
*
18036886 ACACCATTTGGCTTAGGTTTTTTAGCGGCGCTTCCCCAAAAACGCCGCTAAAT-CCCAAAAACTA
1 ACACCGTTTGGCTTAGG--TTTTAGCGGCGCTTCCCCAAAAACGCCGCTAAATCCCCAAAAAC-A
18036950 CGGAAACA
63 CGGAAACA
* **** *
18036958 ACACCGTTTGGCTTAGGATTATTAGTGGCGCTTGATTAAAAACGTCGCTAAATCCCCAAAAACAC
1 ACACCGTTTGGCTTAGG-TT-TTAGCGGCGCTTCCCCAAAAACGCCGCTAAATCCCCAAAAACAC
*
18037023 GGAAACG
64 GGAAACA
*** * * * *
18037030 ATGTCGTTGGGCTTTGGTTTTTGCGGCGCTTCCCGAAAAACGCCGCTAA
1 ACACCGTTTGGCTTAGGTTTTAGCGGCGCTTCCCCAAAAACGCCGCTAA
18037079 TTCTTATTTT
Statistics
Matches: 98, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
70 23 0.23
71 4 0.04
72 62 0.63
73 9 0.09
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.25
Consensus pattern (70 bp):
ACACCGTTTGGCTTAGGTTTTAGCGGCGCTTCCCCAAAAACGCCGCTAAATCCCCAAAAACACGG
AAACA
Found at i:18048845 original size:21 final size:22
Alignment explanation
Indices: 18048809--18048858 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
18048799 TGAAAATTAC
*
18048809 TACATAATTGTTAAAACTTATA
1 TACAAAATTGTTAAAACTTATA
*
18048831 TACAAAATT-TTAAAATTTATA
1 TACAAAATTGTTAAAACTTATA
*
18048852 TAAAAAA
1 TACAAAA
18048859 CATAAATTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (22 bp):
TACAAAATTGTTAAAACTTATA
Found at i:18049750 original size:21 final size:22
Alignment explanation
Indices: 18049714--18049763 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
18049704 TGAAAATTAC
*
18049714 TACATAATTGTTAAAACTTATA
1 TACAAAATTGTTAAAACTTATA
*
18049736 TACAAAATT-TTAAAATTTATA
1 TACAAAATTGTTAAAACTTATA
*
18049757 TAAAAAA
1 TACAAAA
18049764 CATAAATTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (22 bp):
TACAAAATTGTTAAAACTTATA
Found at i:18050062 original size:905 final size:905
Alignment explanation
Indices: 18048312--18050121 Score: 3595
Period size: 905 Copynumber: 2.0 Consensus size: 905
18048302 AAGAAAAACG
18048312 CTGAAAGAAAGGCTTCAGTTTGGATCATCAAATAAAAATAAAAATAAGAAAACGTACCCTTTTAT
1 CTGAAAGAAAGGCTTCAGTTTGGATCATCAAATAAAAATAAAAATAAGAAAACGTACCCTTTTAT
18048377 TTCCTTGGCGTTTTTGGTTGAAGCTTGTGAGAGGAAAGATATGAAAATTATATTAAGAAATAAAA
66 TTCCTTGGCGTTTTTGGTTGAAGCTTGTGAGAGGAAAGATATGAAAATTATATTAAGAAATAAAA
18048442 TATATGAACTATTTTGGTAACTGTACGCACATTGGCATCATAGGAATCTTTTTAACCGTGGGATA
131 TATATGAACTATTTTGGTAACTGTACGCACATTGGCATCATAGGAATCTTTTTAACCGTGGGATA
18048507 AGATTTGTTCATACAAATGAACAATCAAACGGTGGTGATTACATTTGAAGATGGCATGTAATTTT
196 AGATTTGTTCATACAAATGAACAATCAAACGGTGGTGATTACATTTGAAGATGGCATGTAATTTT
18048572 GATTAAATGATGGCCCAATATATTTATGAACAAATTTATCAAATATAAAATATATAATTTTAATT
261 GATTAAATGATGGCCCAATATATTTATGAACAAATTTATCAAATATAAAATATATAATTTTAATT
18048637 GAAATGGTAAAGTTAGATATAAAAAATATTATTTAAGTTGTGATCTATATTATTAGATTTTATAT
326 GAAATGGTAAAGTTAGATATAAAAAATATTATTTAAGTTGTGATCTATATTATTAGATTTTATAT
18048702 TAAAAATGTAAAAAATAAAAATATCTTCCATTAATATTTATTAACTTGTAAAATGATATTTTTTT
391 TAAAAATGTAAAAAATAAAAATATCTTCCATTAATATTTATTAACTTGTAAAATGATATTTTTTT
18048767 GATAATTTTACAGTAAAAAAGAGAAAGAGTAATGAAAATTACTACATAATTGTTAAAACTTATAT
456 GATAATTTTACAGTAAAAAAGAGAAAGAGTAATGAAAATTACTACATAATTGTTAAAACTTATAT
18048832 ACAAAATTTTAAAATTTATATAAAAAACATAAATTCCACATTTTTCTTTTACTAATGGATGTGGT
521 ACAAAATTTTAAAATTTATATAAAAAACATAAATTCCACATTTTTCTTTTACTAATGGATGTGGT
18048897 ATTTTAATTATTTTCAATTAAATTAATGTCTTATTAATCTCTAACATCAATTTAGTTAAAAATTT
586 ATTTTAATTATTTTCAATTAAATTAATGTCTTATTAATCTCTAACATCAATTTAGTTAAAAATTT
18048962 TATAATAATTATTATTATATTTTTATTAATTTTAGTTTGATTGTATAATCTTTTTTATAATAGTT
651 TATAATAATTATTATTATATTTTTATTAATTTTAGTTTGATTGTATAATCTTTTTTATAATAGTT
18049027 ATCCTTTATAATAATAATTTACTTTATATTACACTATTTTTATCGATAACAATAACCATAAAGTG
716 ATCCTTTATAATAATAATTTACTTTATATTACACTATTTTTATCGATAACAATAACCATAAAGTG
18049092 TATTATTTATTAAATTAGTTCTTCATAATAGTCTATTGTCCTAAATTTTAGTAAAATTAATTCTA
781 TATTATTTATTAAATTAGTTCTTCATAATAGTCTATTGTCCTAAATTTTAGTAAAATTAATTCTA
18049157 TTATTAAGTGAAATAAAAATCAATAAATTTAGTTGATATATTATTTCCGTAAAATGTTAA
846 TTATTAAGTGAAATAAAAATCAATAAATTTAGTTGATATATTATTTCCGTAAAATGTTAA
18049217 CTGAAAGAAAGGCTTCAGTTTGGATCATCAAATAAAAATAAAAATAAGAAAACGTACCCTTTTAT
1 CTGAAAGAAAGGCTTCAGTTTGGATCATCAAATAAAAATAAAAATAAGAAAACGTACCCTTTTAT
*
18049282 TTCCTTTTG-GTTTTTGGTTGAAGCTTGTGAGAGGAAAGATATGAAAATTATATTAAGAAATAAA
66 TTCC-TTGGCGTTTTTGGTTGAAGCTTGTGAGAGGAAAGATATGAAAATTATATTAAGAAATAAA
18049346 ATATATGAACTATTTTGGTAACTGTACGCACATTGGCATCATAGGAATCTTTTTAACCGTGGGAT
130 ATATATGAACTATTTTGGTAACTGTACGCACATTGGCATCATAGGAATCTTTTTAACCGTGGGAT
18049411 AAGATTTGTTCATACAAATGAACAATCAAACGGTGGTGATTACATTTGAAGATGGCATGTAATTT
195 AAGATTTGTTCATACAAATGAACAATCAAACGGTGGTGATTACATTTGAAGATGGCATGTAATTT
18049476 TGATTAAATGATGGCCCAATATATTTATGAACAAATTTATCAAATATAAAATATATAATTTTAAT
260 TGATTAAATGATGGCCCAATATATTTATGAACAAATTTATCAAATATAAAATATATAATTTTAAT
18049541 TGAAATGGTAAAGTTAGATATAAAAAATATTATTTAAGTTGTGATCTATATTATTAGATTTTATA
325 TGAAATGGTAAAGTTAGATATAAAAAATATTATTTAAGTTGTGATCTATATTATTAGATTTTATA
18049606 TTAAAAATGTAAAAAATAAAAATATCTTCCATTAATATTTATTAACTTGTAAAATGATATTTTTT
390 TTAAAAATGTAAAAAATAAAAATATCTTCCATTAATATTTATTAACTTGTAAAATGATATTTTTT
18049671 TGATAATTTTACAGTAAAAAAGAGAAAGAGTAATGAAAATTACTACATAATTGTTAAAACTTATA
455 TGATAATTTTACAGTAAAAAAGAGAAAGAGTAATGAAAATTACTACATAATTGTTAAAACTTATA
18049736 TACAAAATTTTAAAATTTATATAAAAAACATAAATTCCACATTTTTCTTTTACTAATGGATGTGG
520 TACAAAATTTTAAAATTTATATAAAAAACATAAATTCCACATTTTTCTTTTACTAATGGATGTGG
18049801 TATTTTAATTATTTTCAATTAAATTAATGTCTTATTAATCTCTAACATCAATTTAGTTAAAAATT
585 TATTTTAATTATTTTCAATTAAATTAATGTCTTATTAATCTCTAACATCAATTTAGTTAAAAATT
18049866 TTATAATAATTATTATTATATTTTTATTAATTTTAGTTTGATTGTATAATCTTTTTTATAATAGT
650 TTATAATAATTATTATTATATTTTTATTAATTTTAGTTTGATTGTATAATCTTTTTTATAATAGT
18049931 TATCCTTTATAATAATAATTTACTTTATATTACACTATTTTTATCGATAACAATAACCATAAAGT
715 TATCCTTTATAATAATAATTTACTTTATATTACACTATTTTTATCGATAACAATAACCATAAAGT
18049996 GTATTATTTATTAAATTAGTTCTTCATAATAGTCTATTGTCCTAAATTTTAGTAAAATTAATTCT
780 GTATTATTTATTAAATTAGTTCTTCATAATAGTCTATTGTCCTAAATTTTAGTAAAATTAATTCT
18050061 ATTATTAAGTGAAATAAAAATCAATAAATTTAGTTGATATATTATTTCCGTAAAATGTTAA
845 ATTATTAAGTGAAATAAAAATCAATAAATTTAGTTGATATATTATTTCCGTAAAATGTTAA
18050122 AATTTTATAT
Statistics
Matches: 903, Mismatches: 1, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
905 900 1.00
906 3 0.00
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.40
Consensus pattern (905 bp):
CTGAAAGAAAGGCTTCAGTTTGGATCATCAAATAAAAATAAAAATAAGAAAACGTACCCTTTTAT
TTCCTTGGCGTTTTTGGTTGAAGCTTGTGAGAGGAAAGATATGAAAATTATATTAAGAAATAAAA
TATATGAACTATTTTGGTAACTGTACGCACATTGGCATCATAGGAATCTTTTTAACCGTGGGATA
AGATTTGTTCATACAAATGAACAATCAAACGGTGGTGATTACATTTGAAGATGGCATGTAATTTT
GATTAAATGATGGCCCAATATATTTATGAACAAATTTATCAAATATAAAATATATAATTTTAATT
GAAATGGTAAAGTTAGATATAAAAAATATTATTTAAGTTGTGATCTATATTATTAGATTTTATAT
TAAAAATGTAAAAAATAAAAATATCTTCCATTAATATTTATTAACTTGTAAAATGATATTTTTTT
GATAATTTTACAGTAAAAAAGAGAAAGAGTAATGAAAATTACTACATAATTGTTAAAACTTATAT
ACAAAATTTTAAAATTTATATAAAAAACATAAATTCCACATTTTTCTTTTACTAATGGATGTGGT
ATTTTAATTATTTTCAATTAAATTAATGTCTTATTAATCTCTAACATCAATTTAGTTAAAAATTT
TATAATAATTATTATTATATTTTTATTAATTTTAGTTTGATTGTATAATCTTTTTTATAATAGTT
ATCCTTTATAATAATAATTTACTTTATATTACACTATTTTTATCGATAACAATAACCATAAAGTG
TATTATTTATTAAATTAGTTCTTCATAATAGTCTATTGTCCTAAATTTTAGTAAAATTAATTCTA
TTATTAAGTGAAATAAAAATCAATAAATTTAGTTGATATATTATTTCCGTAAAATGTTAA
Found at i:18058595 original size:5 final size:5
Alignment explanation
Indices: 18058567--18058626 Score: 79
Period size: 5 Copynumber: 12.2 Consensus size: 5
18058557 TTTTTATGTT
* *
18058567 TTATA -TATA TTATT TTAT- TATATA TTATA TTATA TTATA TTATA TTGTA
1 TTATA TTATA TTATA TTATA T-TATA TTATA TTATA TTATA TTATA TTATA
18058616 TTATA TTATA T
1 TTATA TTATA T
18058627 AAGTAAAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
4 5 0.10
5 43 0.88
6 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (5 bp):
TTATA
Found at i:18072687 original size:6 final size:6
Alignment explanation
Indices: 18072667--18072715 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
18072657 CTGTCGCTTC
* * *
18072667 CACTGT CACTG- --CTGT CACTGT CACTAT CACTAT CACTGC CACTGT
1 CACTGT CACTGT CACTGT CACTGT CACTGT CACTGT CACTGT CACTGT
18072712 CACT
1 CACT
18072716 AGCACTATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
3 3 0.08
6 33 0.92
ACGTcount: A:0.20, C:0.37, G:0.12, T:0.31
Consensus pattern (6 bp):
CACTGT
Found at i:18072704 original size:18 final size:18
Alignment explanation
Indices: 18072681--18072721 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
18072671 GTCACTGCTG
*
18072681 TCACTGTCACTATCACTA
1 TCACTGCCACTATCACTA
*
18072699 TCACTGCCACTGTCACTA
1 TCACTGCCACTATCACTA
*
18072717 GCACT
1 TCACT
18072722 ATTTGCTTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.37, G:0.10, T:0.29
Consensus pattern (18 bp):
TCACTGCCACTATCACTA
Found at i:18077821 original size:359 final size:359
Alignment explanation
Indices: 18077162--18077884 Score: 1419
Period size: 359 Copynumber: 2.0 Consensus size: 359
18077152 AATCAAAATA
18077162 AAATTTAATCCATCCTGCACTAAATTCTTGTGCTGATGATATAAGGATTTATTTACCATCAAACT
1 AAATTTAATCCATCCTGCACTAAATTCTTGTGCTGATGATATAAGGATTTATTTACCATCAAACT
*
18077227 GACCATGCAAATGATACAACCTTTTGTTGATACGCAAGAACTACCAACATTGGTAGACAGTGATA
66 GACCACGCAAATGATACAACCTTTTGTTGATACGCAAGAACTACCAACATTGGTAGACAGTGATA
18077292 ACTATCATTTTAAACAAGTTGACTAGATTTGCTTGCTTTTCTGCAAATGCATACTTTTTTCAGAG
131 ACTATCATTTTAAACAAGTTGACTAGATTTGCTTGCTTTTCTGCAAATGCATACTTTTTTCAGAG
18077357 GTTTAGGTATGTGAACAATCCTGCATTAAACTTTCATTTTTACATGTTTTACAACTGCTCCTACC
196 GTTTAGGTATGTGAACAATCCTGCATTAAACTTTCATTTTTACATGTTTTACAACTGCTCCTACC
18077422 TAAAGTGACCCTCTATCATATCTTGTACACATGGACTTAAAAGCCATATCATATTCAAAGTAGGA
261 TAAAGTGACCCTCTATCATATCTTGTACACATGGACTTAAAAGCCATATCATATTCAAAGTAGGA
18077487 ATCACCAAATTCAGAACCTAAATCATCAGATACT
326 ATCACCAAATTCAGAACCTAAATCATCAGATACT
18077521 AAATTTAATCCATCCTGCACTAAATTCTTGTGCTGATGATATAAGGATTTATTTACCATCAAACT
1 AAATTTAATCCATCCTGCACTAAATTCTTGTGCTGATGATATAAGGATTTATTTACCATCAAACT
18077586 GACCACGCAAATGATACAACCTTTTGTTGATACGCAAGAACTACCAACATTGGTAGACAGTGATA
66 GACCACGCAAATGATACAACCTTTTGTTGATACGCAAGAACTACCAACATTGGTAGACAGTGATA
*
18077651 GCTATCATTTTAAACAAGTTGACTAGATTTGCTTGCTTTTCTGCAAATGCATACTTTTTTCAGAG
131 ACTATCATTTTAAACAAGTTGACTAGATTTGCTTGCTTTTCTGCAAATGCATACTTTTTTCAGAG
18077716 GTTTAGGTATGTGAACAATCCTGCATTAAACTTTCATTTTTACATGTTTTACAACTGCTCCTACC
196 GTTTAGGTATGTGAACAATCCTGCATTAAACTTTCATTTTTACATGTTTTACAACTGCTCCTACC
18077781 TAAAGTGACCCTCTATCATATCTTGTACACATGGACTTAAAAGCCATATCATATTCAAAGTAGGA
261 TAAAGTGACCCTCTATCATATCTTGTACACATGGACTTAAAAGCCATATCATATTCAAAGTAGGA
*
18077846 ATCACCAAATTCCGAACCTAAATCATCAGATACT
326 ATCACCAAATTCAGAACCTAAATCATCAGATACT
18077880 AAATT
1 AAATT
18077885 AACCAACAAG
Statistics
Matches: 361, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
359 361 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.33
Consensus pattern (359 bp):
AAATTTAATCCATCCTGCACTAAATTCTTGTGCTGATGATATAAGGATTTATTTACCATCAAACT
GACCACGCAAATGATACAACCTTTTGTTGATACGCAAGAACTACCAACATTGGTAGACAGTGATA
ACTATCATTTTAAACAAGTTGACTAGATTTGCTTGCTTTTCTGCAAATGCATACTTTTTTCAGAG
GTTTAGGTATGTGAACAATCCTGCATTAAACTTTCATTTTTACATGTTTTACAACTGCTCCTACC
TAAAGTGACCCTCTATCATATCTTGTACACATGGACTTAAAAGCCATATCATATTCAAAGTAGGA
ATCACCAAATTCAGAACCTAAATCATCAGATACT
Found at i:18079861 original size:20 final size:19
Alignment explanation
Indices: 18079836--18079885 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
18079826 AATTAAGTTT
*
18079836 ATTTAAAATAAAAATATTAA
1 ATTTAAAATAAAAATA-GAA
*
18079856 ATTTAAATTCAAAAATAGAA
1 ATTTAAAAT-AAAAATAGAA
*
18079876 ATTTATAATA
1 ATTTAAAATA
18079886 TTAACTATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 1 0.04
20 17 0.68
21 7 0.28
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (19 bp):
ATTTAAAATAAAAATAGAA
Found at i:18080076 original size:15 final size:14
Alignment explanation
Indices: 18080024--18080086 Score: 65
Period size: 14 Copynumber: 4.4 Consensus size: 14
18080014 ATATTAGTTA
* *
18080024 AAAATGTATAATAT
1 AAAATATATAATTT
*
18080038 ATAATATATAATTT
1 AAAATATATAATTT
18080052 AAAA-ACTATAATTCT
1 AAAATA-TATAATT-T
18080067 AAAATATATAATTT
1 AAAATATATAATTT
*
18080081 TAAATA
1 AAAATA
18080087 GTTAAAACAA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
13 1 0.02
14 27 0.66
15 12 0.29
16 1 0.02
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.40
Consensus pattern (14 bp):
AAAATATATAATTT
Found at i:18080342 original size:19 final size:19
Alignment explanation
Indices: 18080308--18080371 Score: 71
Period size: 19 Copynumber: 3.4 Consensus size: 19
18080298 AATTAATTTT
18080308 TATTTTTA-AACTTTTTTAAC
1 TATTTTTACAA-TTTTTT-AC
18080328 TATTTTTACAATTTTTTA-
1 TATTTTTACAATTTTTTAC
*
18080346 TAGTTTTTACATTTTTTTAC
1 TA-TTTTTACAATTTTTTAC
18080366 -ATTTTT
1 TATTTTT
18080372 GTAATAATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
18 7 0.17
19 17 0.43
20 14 0.35
21 2 0.05
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.66
Consensus pattern (19 bp):
TATTTTTACAATTTTTTAC
Found at i:18080362 original size:10 final size:10
Alignment explanation
Indices: 18080330--18080371 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
18080320 TTTTTAACTA
*
18080330 TTTTTACAAT
1 TTTTTACATT
* *
18080340 TTTTTATA-G
1 TTTTTACATT
18080349 TTTTTACATT
1 TTTTTACATT
18080359 TTTTTACATT
1 TTTTTACATT
18080369 TTT
1 TTT
18080372 GTAATAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 7 0.26
10 20 0.74
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.69
Consensus pattern (10 bp):
TTTTTACATT
Found at i:18081150 original size:142 final size:141
Alignment explanation
Indices: 18080997--18081278 Score: 483
Period size: 142 Copynumber: 2.0 Consensus size: 141
18080987 ATCTAATTAT
*
18080997 AAATATCTAATGGTTATATTTAAATATTTAAAACATAGTTTATATATTCTAATTAAGTTTTAAAA
1 AAATATCTAATGGTTATATTTAAATATTTAAAACATAGTTTATATATTCTAATTAAATTTTAAAA
*
18081062 ATAATTAATATTTATTGCTTAAAAATATTTAAAATTCATATTTTATATATTAAAATATTAACAAG
66 ATAATTAATATTTATTGCTTAAAAATATTTAAAATTCATATTTGATATA-TAAAATATTAACAAG
18081127 AAGTTATAATAC
130 AAGTTATAATAC
* * *
18081139 AAATATTTAATGGTTATATTTAAATATTTAAAATATAGTTTATATATTCTAATTAAATTTTATAA
1 AAATATCTAATGGTTATATTTAAATATTTAAAACATAGTTTATATATTCTAATTAAATTTTAAAA
* * *
18081204 ATAATTAATATTTATTGCTTAAAAATATTTACAATTTATATTTGATATATAAAATATTAACAATA
66 ATAATTAATATTTATTGCTTAAAAATATTTAAAATTCATATTTGATATATAAAATATTAACAAGA
18081269 AGTTATAATA
131 AGTTATAATA
18081279 ATTTTTTTAT
Statistics
Matches: 132, Mismatches: 8, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
141 25 0.19
142 107 0.81
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (141 bp):
AAATATCTAATGGTTATATTTAAATATTTAAAACATAGTTTATATATTCTAATTAAATTTTAAAA
ATAATTAATATTTATTGCTTAAAAATATTTAAAATTCATATTTGATATATAAAATATTAACAAGA
AGTTATAATAC
Found at i:18081451 original size:13 final size:13
Alignment explanation
Indices: 18081411--18081470 Score: 57
Period size: 13 Copynumber: 4.6 Consensus size: 13
18081401 TAAACTAAAT
* *
18081411 TTTTCAAAAATAT
1 TTTTCAAAAACAC
* *
18081424 TTTTTAAAAATAC
1 TTTTCAAAAACAC
* *
18081437 TTTTCCACAACAC
1 TTTTCAAAAACAC
*
18081450 TTTTTAAAAACAC
1 TTTTCAAAAACAC
18081463 TTTTCAAA
1 TTTTCAAA
18081471 TGTATTACTA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.42
Consensus pattern (13 bp):
TTTTCAAAAACAC
Found at i:18081815 original size:40 final size:40
Alignment explanation
Indices: 18081757--18081837 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 40
18081747 TATAAATCAT
*
18081757 TAACACTATTATTAATATAACATCATTTCACATTAACATA
1 TAACACAATTATTAATATAACATCATTTCACATTAACATA
* * *
18081797 TAACACAATTATTGATATAACGTCATTTTACATTAACATA
1 TAACACAATTATTAATATAACATCATTTCACATTAACATA
18081837 T
1 T
18081838 TGCGTACATG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.43, C:0.16, G:0.02, T:0.38
Consensus pattern (40 bp):
TAACACAATTATTAATATAACATCATTTCACATTAACATA
Found at i:18084043 original size:11 final size:11
Alignment explanation
Indices: 18084027--18084065 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
18084017 TTTATTGTTA
18084027 TTTGCTACTAT
1 TTTGCTACTAT
*
18084038 TTTGCTATTAT
1 TTTGCTACTAT
* *
18084049 ATTGTTACTAT
1 TTTGCTACTAT
18084060 TTTGCT
1 TTTGCT
18084066 GTTATTATTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.18, C:0.13, G:0.10, T:0.59
Consensus pattern (11 bp):
TTTGCTACTAT
Found at i:18084060 original size:22 final size:21
Alignment explanation
Indices: 18084024--18084071 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
18084014 TGTTTTATTG
18084024 TTATTTGCTACTATTTTGCTA
1 TTATTTGCTACTATTTTGCTA
* *
18084045 TTATATTGTTACTATTTTGCTG
1 TTAT-TTGCTACTATTTTGCTA
18084067 TTATT
1 TTATT
18084072 ATTTGGATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.19, C:0.10, G:0.10, T:0.60
Consensus pattern (21 bp):
TTATTTGCTACTATTTTGCTA
Found at i:18092719 original size:3 final size:3
Alignment explanation
Indices: 18092711--18092735 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
18092701 CATATTATCT
18092711 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
18092736 AGGAAACTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:18093243 original size:6 final size:6
Alignment explanation
Indices: 18093232--18093257 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
18093222 CTCACTGGTT
18093232 GGGAAA GGGAAA GGGAAA GGGAAA GG
1 GGGAAA GGGAAA GGGAAA GGGAAA GG
18093258 AGCTTTTGTC
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:0.54, T:0.00
Consensus pattern (6 bp):
GGGAAA
Found at i:18094444 original size:35 final size:35
Alignment explanation
Indices: 18094405--18094471 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
18094395 GTTCAAATAA
18094405 AAATATGGCATGTGACTGATTCAAATAGAGAAAAC
1 AAATATGGCATGTGACTGATTCAAATAGAGAAAAC
* *
18094440 AAATATGGCTTGTGATTGATTCAAATAGAGAA
1 AAATATGGCATGTGACTGATTCAAATAGAGAA
18094472 CGTCATAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.27
Consensus pattern (35 bp):
AAATATGGCATGTGACTGATTCAAATAGAGAAAAC
Found at i:18095341 original size:2 final size:2
Alignment explanation
Indices: 18095334--18095358 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18095324 GTGTTTTCAA
18095334 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
18095359 TCTCATATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:18107786 original size:2 final size:2
Alignment explanation
Indices: 18107779--18107803 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18107769 GACATATTTA
18107779 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 A
18107804 CATTTAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18110939 original size:17 final size:17
Alignment explanation
Indices: 18110915--18110948 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18110905 GTATTTAATA
18110915 AATTACAC-AAATTTAT
1 AATTACACTAAATTTAT
18110931 AATTAACACTAAATTTAT
1 AATT-ACACTAAATTTAT
18110949 TCCAAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 4 0.25
18 8 0.50
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (17 bp):
AATTACACTAAATTTAT
Found at i:18112883 original size:2 final size:2
Alignment explanation
Indices: 18112876--18112902 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18112866 GGGCCCAAAT
18112876 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
18112903 TTTTATAAAT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:18118244 original size:16 final size:16
Alignment explanation
Indices: 18118207--18118237 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18118197 GTTGGGTTAG
18118207 GGTTTTATGGATTTTA
1 GGTTTTATGGATTTTA
*
18118223 GGTTTTATGGGTTTT
1 GGTTTTATGGATTTT
18118238 GAGTTTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.00, G:0.29, T:0.58
Consensus pattern (16 bp):
GGTTTTATGGATTTTA
Found at i:18118258 original size:11 final size:10
Alignment explanation
Indices: 18118244--18118299 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
18118234 TTTTGAGTTT
18118244 TTTTTATTATA
1 TTTTT-TTATA
18118255 TTTTTTT-TAA
1 TTTTTTTAT-A
* *
18118265 GTTTTGTATA
1 TTTTTTTATA
*
18118275 TTTTTTTATT
1 TTTTTTTATA
18118285 TTTTATTTATA
1 TTTT-TTTATA
18118296 TTTT
1 TTTT
18118300 CTTGAGATGT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
9 1 0.03
10 20 0.56
11 15 0.42
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.77
Consensus pattern (10 bp):
TTTTTTTATA
Found at i:18118354 original size:15 final size:15
Alignment explanation
Indices: 18118334--18118366 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
18118324 TTTAATTTGA
18118334 TATTTACAACC-ATCG
1 TATTTAC-ACCAATCG
18118349 TATTTACACCAATCG
1 TATTTACACCAATCG
18118364 TAT
1 TAT
18118367 ATTTGAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.18
15 14 0.82
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.36
Consensus pattern (15 bp):
TATTTACACCAATCG
Found at i:18120870 original size:37 final size:38
Alignment explanation
Indices: 18120811--18120890 Score: 108
Period size: 37 Copynumber: 2.1 Consensus size: 38
18120801 TGTCAATTTA
* *
18120811 TTACTTCGGATTTATTCGATGAGGCACTGGGTGCCAAC
1 TTACTTCGGATTTAATCGATGAGACACTGGGTGCCAAC
* * *
18120849 TTACTTCTG-TTTAATCGATGAGACACTGGGTGTCAAT
1 TTACTTCGGATTTAATCGATGAGACACTGGGTGCCAAC
18120886 TTACT
1 TTACT
18120891 ACTTTGAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
37 29 0.78
38 8 0.22
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.36
Consensus pattern (38 bp):
TTACTTCGGATTTAATCGATGAGACACTGGGTGCCAAC
Found at i:18122788 original size:29 final size:28
Alignment explanation
Indices: 18122718--18122778 Score: 122
Period size: 28 Copynumber: 2.2 Consensus size: 28
18122708 AATTTTAATA
18122718 AAAAAAAAGAGAGAGTTGAAAGAAAAAT
1 AAAAAAAAGAGAGAGTTGAAAGAAAAAT
18122746 AAAAAAAAGAGAGAGTTGAAAGAAAAAT
1 AAAAAAAAGAGAGAGTTGAAAGAAAAAT
18122774 AAAAA
1 AAAAA
18122779 TTAAGTGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.70, C:0.00, G:0.20, T:0.10
Consensus pattern (28 bp):
AAAAAAAAGAGAGAGTTGAAAGAAAAAT
Found at i:18137774 original size:155 final size:153
Alignment explanation
Indices: 18137474--18137775 Score: 374
Period size: 155 Copynumber: 2.0 Consensus size: 153
18137464 TCTTGGTTTA
* *
18137474 TAAAAATATACTATTTTTTATTTTTTTATTTTACATTATTTTATTACATTATATTTGAAATGTAT
1 TAAAAATATACTATTTTCTATTTTTTTATTTTACATTATTTTAGTACATTATATTTGAAATGTAT
* * **** ** *
18137539 TAATTTATTGTGTTTTTTAAATAAATTTTTTTAAAAAAACTCTTATTTCGGCCCTATGTTCGTAT
66 TAATTTAGTGTGTGTTTTAAATAAA-TTTTTTAAAAAAACTCTTATTTCGGCCCTAAAAACACAG
*** **
18137604 TTTTTTCCTGAATTTTATTACTTT
130 TAAATTAATGAATTTTATTACTTT
18137628 TAAAAATATACTATTTTCTATTTTTTTTATTTTACATTATTTTAGTACATTATATTTGAAATGTA
1 TAAAAATATACTATTTTCTA-TTTTTTTATTTTACATTATTTTAGTACATTATATTTGAAATGTA
***
18137693 TTAATTTAGTGTGTGTTTTAAATAAA-TTTTTAAAAAAACTCTTATTTCGGGTTTTAAAAAACAC
65 TTAATTTAGTGTGTGTTTTAAATAAATTTTTTAAAAAAACTCTTATTTC-GGCCCT-AAAAACAC
18137757 AGTAAATTAAT-ACATTTTA
128 AGTAAATTAATGA-ATTTTA
18137776 AATATAATGT
Statistics
Matches: 125, Mismatches: 19, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
153 22 0.18
154 23 0.18
155 80 0.64
ACGTcount: A:0.33, C:0.08, G:0.07, T:0.53
Consensus pattern (153 bp):
TAAAAATATACTATTTTCTATTTTTTTATTTTACATTATTTTAGTACATTATATTTGAAATGTAT
TAATTTAGTGTGTGTTTTAAATAAATTTTTTAAAAAAACTCTTATTTCGGCCCTAAAAACACAGT
AAATTAATGAATTTTATTACTTT
Found at i:18138025 original size:154 final size:154
Alignment explanation
Indices: 18137745--18138178 Score: 825
Period size: 154 Copynumber: 2.8 Consensus size: 154
18137735 TATTTCGGGT
18137745 TTTAAAAAACACAGTAAATTAATACATTTTAAATATAATGTACTAAAATAATGTAAAATAAAAAA
1 TTTAAAAAACACAGTAAATTAATACATTTTAAATATAATGTACTAAAATAATGTAAAATAAAAAA
18137810 ATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATCTGGGGAAAAAAATATGAACATAGGGTCG
66 ATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATCTGGGGAAAAAAATATGAACATAGGGTCG
18137875 AAATAAGGGTTTTTTTTAAATTTA
131 AAATAAGGGTTTTTTTTAAATTTA
18137899 TTTAAAAAACACAGTAAATTAATACATTTTAAATATAATGTACTAAAATAATGTAAAATAAAAAA
1 TTTAAAAAACACAGTAAATTAATACATTTTAAATATAATGTACTAAAATAATGTAAAATAAAAAA
18137964 ATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATCTGGGGAAAAAAATATGAACATAGGGTCG
66 ATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATCTGGGGAAAAAAATATGAACATAGGGTCG
18138029 AAATAAGGGTTTTTTTTAAATTTA
131 AAATAAGGGTTTTTTTTAAATTTA
18138053 TTTAAAAAACACAGTAAATTAATACATTTTAAATATAATGTACTAAAATAATGTAAAATAAAAAA
1 TTTAAAAAACACAGTAAATTAATACATTTTAAATATAATGTACTAAAATAATGTAAAATAAAAAA
* * * *
18138118 ATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATC-CGGGACAAAAATACGAACAAAGGG
66 ATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATCTGGGGAAAAAAATATGAACATAGGG
18138179 CCAAAATACA
Statistics
Matches: 276, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
153 20 0.07
154 256 0.93
ACGTcount: A:0.53, C:0.05, G:0.11, T:0.32
Consensus pattern (154 bp):
TTTAAAAAACACAGTAAATTAATACATTTTAAATATAATGTACTAAAATAATGTAAAATAAAAAA
ATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATCTGGGGAAAAAAATATGAACATAGGGTCG
AAATAAGGGTTTTTTTTAAATTTA
Found at i:18138341 original size:19 final size:18
Alignment explanation
Indices: 18138304--18138342 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
18138294 TAAAAAGTTA
*
18138304 TATTATTTTGGAATTTTT
1 TATTATTTTGGAATATTT
*
18138322 TATTATTTTTGTAATATTT
1 TATTA-TTTTGGAATATTT
18138341 TA
1 TA
18138343 GTAAAATACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.67
Consensus pattern (18 bp):
TATTATTTTGGAATATTT
Found at i:18139690 original size:18 final size:19
Alignment explanation
Indices: 18139661--18139703 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
18139651 CTAAAATATA
*
18139661 AAATTATTTTTTAATTTTT
1 AAATTATTTTTTAAATTTT
*
18139680 TAATT-TTTTTTAAATTTT
1 AAATTATTTTTTAAATTTT
18139698 AAATTA
1 AAATTA
18139704 ATAAAAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
AAATTATTTTTTAAATTTT
Found at i:18141309 original size:22 final size:24
Alignment explanation
Indices: 18141276--18141322 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
18141266 TATAAAAATA
18141276 TTATTAATTTT-ACAATATATTTT
1 TTATTAATTTTAACAATATATTTT
*
18141299 TTATT-ATTTTAATAATATATTTT
1 TTATTAATTTTAACAATATATTTT
18141322 T
1 T
18141323 ACATATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (24 bp):
TTATTAATTTTAACAATATATTTT
Found at i:18141329 original size:23 final size:24
Alignment explanation
Indices: 18141289--18141337 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
18141279 TTAATTTTAC
*
18141289 AATATATTTTTTATTATTTTA-AT
1 AATATATTTTTTAATATTTTATAT
18141312 AATATA-TTTTTACATATTTTATAT
1 AATATATTTTTTA-ATATTTTATAT
18141336 AA
1 AA
18141338 AAAATAAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 6 0.26
23 13 0.57
24 4 0.17
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (24 bp):
AATATATTTTTTAATATTTTATAT
Found at i:18141532 original size:15 final size:17
Alignment explanation
Indices: 18141500--18141532 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
18141490 AAAGGTTCAC
18141500 TTCATTTTAATATATTT
1 TTCATTTTAATATATTT
18141517 TTCA-TTTAAT-TATTT
1 TTCATTTTAATATATTT
18141532 T
1 T
18141533 CACCCACATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 6 0.38
17 4 0.25
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (17 bp):
TTCATTTTAATATATTT
Found at i:18141980 original size:20 final size:20
Alignment explanation
Indices: 18141957--18142000 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
18141947 CCAGGTTCAC
18141957 GGTTTAGAATTCGGGTTTAA
1 GGTTTAGAATTCGGGTTTAA
* * * *
18141977 GGTTTGGACTTTGTGTTTAA
1 GGTTTAGAATTCGGGTTTAA
18141997 GGTT
1 GGTT
18142001 CAATATTTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.18, C:0.05, G:0.32, T:0.45
Consensus pattern (20 bp):
GGTTTAGAATTCGGGTTTAA
Found at i:18149790 original size:23 final size:23
Alignment explanation
Indices: 18149770--18149837 Score: 118
Period size: 23 Copynumber: 3.0 Consensus size: 23
18149760 TTAAATTTTG
*
18149770 AATTATTTAATGATAATATTTAA
1 AATTATTTAGTGATAATATTTAA
*
18149793 AATTATTTAGCGATAATATTTAA
1 AATTATTTAGTGATAATATTTAA
18149816 AATTATTTAGTGATAATATTTA
1 AATTATTTAGTGATAATATTTA
18149838 GTGATAATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.44, C:0.01, G:0.07, T:0.47
Consensus pattern (23 bp):
AATTATTTAGTGATAATATTTAA
Found at i:18149791 original size:13 final size:13
Alignment explanation
Indices: 18149773--18149851 Score: 62
Period size: 13 Copynumber: 6.5 Consensus size: 13
18149763 AATTTTGAAT
18149773 TATTTAATGATAA
1 TATTTAATGATAA
*
18149786 TATTTAA--A-AT
1 TATTTAATGATAA
**
18149796 TATTTAGCGATAA
1 TATTTAATGATAA
*
18149809 TATTTAA--A-AT
1 TATTTAATGATAA
*
18149819 TATTTAGTGATAA
1 TATTTAATGATAA
*
18149832 TATTTAGTGATAA
1 TATTTAATGATAA
18149845 TATTTAA
1 TATTTAA
18149852 AAAACAATCT
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
10 14 0.27
11 2 0.04
12 2 0.04
13 34 0.65
ACGTcount: A:0.43, C:0.01, G:0.09, T:0.47
Consensus pattern (13 bp):
TATTTAATGATAA
Found at i:18153417 original size:18 final size:18
Alignment explanation
Indices: 18153394--18153429 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
18153384 TCCGTAAATA
18153394 TTTATAAAAATATTTATG
1 TTTATAAAAATATTTATG
18153412 TTTATAAAAATATTTATG
1 TTTATAAAAATATTTATG
18153430 GCTCAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (18 bp):
TTTATAAAAATATTTATG
Found at i:18169812 original size:7 final size:7
Alignment explanation
Indices: 18169800--18169824 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18169790 CCAATCCTTT
18169800 TATAATA
1 TATAATA
18169807 TATAATA
1 TATAATA
18169814 TATAATA
1 TATAATA
18169821 TATA
1 TATA
18169825 CAAAAACCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TATAATA
Found at i:18170983 original size:38 final size:38
Alignment explanation
Indices: 18170941--18171017 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
18170931 GAAGAAGACC
18170941 CCTTTCCCATCGTTATGAGGGTATTTATAGGGGAGGCT
1 CCTTTCCCATCGTTATGAGGGTATTTATAGGGGAGGCT
18170979 CCTTTCCCATCGTTATGAGGGTATTTATAGGGGAGGCT
1 CCTTTCCCATCGTTATGAGGGTATTTATAGGGGAGGCT
18171017 C
1 C
18171018 TCTTGTCTGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.18, C:0.19, G:0.29, T:0.34
Consensus pattern (38 bp):
CCTTTCCCATCGTTATGAGGGTATTTATAGGGGAGGCT
Found at i:18171198 original size:18 final size:18
Alignment explanation
Indices: 18171158--18171198 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
18171148 AGTGATCTCT
* *
18171158 AAAAGAATGTTTACATTT
1 AAAAGAATGTTTACACTA
*
18171176 GAAAGAATGTTTACACTA
1 AAAAGAATGTTTACACTA
18171194 AAAAG
1 AAAAG
18171199 CGGGTGGCAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.07, G:0.15, T:0.29
Consensus pattern (18 bp):
AAAAGAATGTTTACACTA
Found at i:18179392 original size:29 final size:30
Alignment explanation
Indices: 18179358--18179452 Score: 88
Period size: 31 Copynumber: 3.1 Consensus size: 30
18179348 TGTATATGAT
*
18179358 ACATG-AACTTTAATTTGGTGT-AATTATAC
1 ACATGAAACTTTAATTTGGT-TCAAATATAC
* *
18179387 ACATGAAACTTTGATTGTGGTTCAAATATAT
1 ACATGAAACTTTAATT-TGGTTCAAATATAC
* *
18179418 AAATGAAACTTTAATTTTGATTC-AATCATAC
1 ACATGAAACTTTAA-TTTGGTTCAAAT-ATAC
18179449 ACAT
1 ACAT
18179453 TTAATGAAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
29 5 0.09
30 13 0.25
31 33 0.62
32 2 0.04
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.39
Consensus pattern (30 bp):
ACATGAAACTTTAATTTGGTTCAAATATAC
Found at i:18192942 original size:24 final size:24
Alignment explanation
Indices: 18192900--18192948 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
18192890 ACAGTAATCC
* *
18192900 TTTATTTTATCTTATCTTATTTTA
1 TTTACTTTATCTTATCTTAATTTA
18192924 TTTACTTTATCTT-TGCTTAATTTA
1 TTTACTTTATCTTAT-CTTAATTTA
18192948 T
1 T
18192949 AGGATTTCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 21 0.95
ACGTcount: A:0.20, C:0.10, G:0.02, T:0.67
Consensus pattern (24 bp):
TTTACTTTATCTTATCTTAATTTA
Found at i:18197757 original size:58 final size:58
Alignment explanation
Indices: 18197687--18197800 Score: 194
Period size: 58 Copynumber: 2.0 Consensus size: 58
18197677 TTTCAAGGTT
*
18197687 AGCCAGTTTCCGTCCATC-AACAGGGTTTCATTGTATTCAATTTAGTAGTGTGATTGTC
1 AGCCAGTTTCCGTCCATCGAA-AGGGTTTCATTGTATTCAATTTAATAGTGTGATTGTC
*
18197745 AGCCAGTTTCCGTCCATCGAAAGGGTTTCTTTGTATTCAATTTAATAGTGTGATTG
1 AGCCAGTTTCCGTCCATCGAAAGGGTTTCATTGTATTCAATTTAATAGTGTGATTG
18197801 AATATCAGAA
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
58 51 0.96
59 2 0.04
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.39
Consensus pattern (58 bp):
AGCCAGTTTCCGTCCATCGAAAGGGTTTCATTGTATTCAATTTAATAGTGTGATTGTC
Found at i:18207809 original size:15 final size:15
Alignment explanation
Indices: 18207791--18207824 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
18207781 GAAAAAAAAA
18207791 AAAGAAAAGAAAAGC
1 AAAGAAAAGAAAAGC
* *
18207806 AAAGTAAAGCAAAGC
1 AAAGAAAAGAAAAGC
18207821 AAAG
1 AAAG
18207825 GCAAATTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.09, G:0.21, T:0.03
Consensus pattern (15 bp):
AAAGAAAAGAAAAGC
Found at i:18208169 original size:3 final size:3
Alignment explanation
Indices: 18208161--18208190 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
18208151 ACCCATTTTC
18208161 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
18208191 TGAGAGATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:18217240 original size:5 final size:5
Alignment explanation
Indices: 18217230--18217255 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
18217220 TGAGCATTCG
18217230 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
18217256 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:18218536 original size:9 final size:9
Alignment explanation
Indices: 18218519--18218549 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
18218509 TCGAGTTGAT
18218519 TCGAATAAC
1 TCGAATAAC
*
18218528 TCGATTAAC
1 TCGAATAAC
18218537 TCGAATAAC
1 TCGAATAAC
18218546 TCGA
1 TCGA
18218550 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:18219180 original size:22 final size:23
Alignment explanation
Indices: 18219151--18219225 Score: 75
Period size: 22 Copynumber: 3.3 Consensus size: 23
18219141 TTTAAATTGA
18219151 TTAT-ATAATTTATTAAAAT-AT
1 TTATAATAATTTATTAAAATAAT
**
18219172 TTATAATAAAATATTAGAAGATACAT
1 TTATAATAATTTATTA-AA-ATA-AT
*
18219198 TT-TAATAATTTATTAAATTAAT
1 TTATAATAATTTATTAAAATAAT
18219220 TTATAA
1 TTATAA
18219226 ATTCACATAT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
21 4 0.09
22 13 0.30
23 7 0.16
24 4 0.09
25 11 0.26
26 4 0.09
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (23 bp):
TTATAATAATTTATTAAAATAAT
Found at i:18219413 original size:21 final size:21
Alignment explanation
Indices: 18219380--18219432 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
18219370 CATTGTTTCT
* * *
18219380 AATCTTACTGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
18219401 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
18219422 AATCTCACCGC
1 AATCTCACCGC
18219433 CACCACTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.34, G:0.09, T:0.26
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:18232351 original size:20 final size:19
Alignment explanation
Indices: 18232317--18232370 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
18232307 AACAACAGAG
*
18232317 TAATCTAATTATTTATGATTT
1 TAATC-AATTTTTTAT-ATTT
*
18232338 TAATCAATTTTTTATTTTT
1 TAATCAATTTTTTATATTT
* *
18232357 TTATTAATTTTTTA
1 TAATCAATTTTTTA
18232371 GAAAAGTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 15 0.52
20 9 0.31
21 5 0.17
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (19 bp):
TAATCAATTTTTTATATTT
Found at i:18235067 original size:2 final size:2
Alignment explanation
Indices: 18235054--18235115 Score: 88
Period size: 2 Copynumber: 31.0 Consensus size: 2
18235044 CTCATCCACA
* * *
18235054 TC TC TC TT TC TC TC TC TC TC TC TC TG TC TC TC TC TC TG TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
*
18235096 TC TC TC TG TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC
18235116 CCACTCTTTG
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.00, C:0.44, G:0.05, T:0.52
Consensus pattern (2 bp):
TC
Found at i:18235071 original size:12 final size:12
Alignment explanation
Indices: 18235056--18235114 Score: 100
Period size: 12 Copynumber: 4.9 Consensus size: 12
18235046 CATCCACATC
* *
18235056 TCTCTTTCTCTC
1 TCTCTCTCTCTG
18235068 TCTCTCTCTCTG
1 TCTCTCTCTCTG
18235080 TCTCTCTCTCTG
1 TCTCTCTCTCTG
18235092 TCTCTCTCTCTG
1 TCTCTCTCTCTG
18235104 TCTCTCTCTCT
1 TCTCTCTCTCT
18235115 CCCACTCTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 45 1.00
ACGTcount: A:0.00, C:0.42, G:0.05, T:0.53
Consensus pattern (12 bp):
TCTCTCTCTCTG
Found at i:18243101 original size:15 final size:16
Alignment explanation
Indices: 18243081--18243115 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
18243071 GAGAAGTACT
18243081 TATTTAAT-TATTTTA
1 TATTTAATATATTTTA
*
18243096 TATTTAATATATTTTT
1 TATTTAATATATTTTA
18243112 TATT
1 TATT
18243116 CAAGTAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TATTTAATATATTTTA
Found at i:18252134 original size:26 final size:26
Alignment explanation
Indices: 18252104--18252154 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
18252094 TTCAAAGAAT
*
18252104 TTTGATCTCTGTTGAAAAATAATTCA
1 TTTGATATCTGTTGAAAAATAATTCA
*
18252130 TTTGATATCTGTTGACAAATAATTC
1 TTTGATATCTGTTGAAAAATAATTC
18252155 TTAAAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (26 bp):
TTTGATATCTGTTGAAAAATAATTCA
Found at i:18256283 original size:42 final size:42
Alignment explanation
Indices: 18256210--18256298 Score: 99
Period size: 42 Copynumber: 2.1 Consensus size: 42
18256200 ACAACAATTC
* * *
18256210 CAACAACAACAGCAGCAACGTATGTTACAGCAGCAGCAACAA
1 CAACAACAACAGCAGCAACGCAAGTTACAGCAGAAGCAACAA
* * * *
18256252 CAACAACAACAGCAGCAGCAGCAAG-TGCAGCAGAATCAGCAA
1 CAACAACAACAGCAGCAAC-GCAAGTTACAGCAGAAGCAACAA
18256294 CAACA
1 CAACA
18256299 GTCACTAGCT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 36 0.92
43 3 0.08
ACGTcount: A:0.46, C:0.29, G:0.18, T:0.07
Consensus pattern (42 bp):
CAACAACAACAGCAGCAACGCAAGTTACAGCAGAAGCAACAA
Found at i:18268633 original size:14 final size:15
Alignment explanation
Indices: 18268611--18268639 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
18268601 GTTAGGTCCC
18268611 CCATGTTGCGTCTCA
1 CCATGTTGCGTCTCA
18268626 CCAT-TTGCGTCTCA
1 CCATGTTGCGTCTCA
18268640 AAAGGTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.14, C:0.34, G:0.17, T:0.34
Consensus pattern (15 bp):
CCATGTTGCGTCTCA
Found at i:18269385 original size:14 final size:14
Alignment explanation
Indices: 18269344--18269387 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
18269334 ATTTCAAATT
* *
18269344 TCGAGTTAATCGAA
1 TCGAGTTATTCGAG
18269358 TCGAGTTATTCGAG
1 TCGAGTTATTCGAG
18269372 TCGAGTTATTCGAG
1 TCGAGTTATTCGAG
18269386 TC
1 TC
18269388 AACTCGAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (14 bp):
TCGAGTTATTCGAG
Found at i:18269611 original size:19 final size:20
Alignment explanation
Indices: 18269576--18269618 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
18269566 TCAAATTTTG
*
18269576 AAAATATTTGTTAAAATTC-
1 AAAATATTTGATAAAATTCT
18269595 AAAATATTT-ATAGAAATTCT
1 AAAATATTTGATA-AAATTCT
18269615 AAAA
1 AAAA
18269619 AAATTATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 2 0.10
19 15 0.71
20 4 0.19
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (20 bp):
AAAATATTTGATAAAATTCT
Found at i:18269625 original size:20 final size:19
Alignment explanation
Indices: 18269589--18269637 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 19
18269579 ATATTTGTTA
* *
18269589 AAATTCAAAATATTTATAG
1 AAATTCAAAAAAATTATAG
18269608 AAATTCTAAAAAAATTAT--
1 AAATTC-AAAAAAATTATAG
18269626 AAATT-AAAAAAA
1 AAATTCAAAAAAA
18269638 ACTAAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 7 0.26
18 5 0.19
19 6 0.22
20 9 0.33
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (19 bp):
AAATTCAAAAAAATTATAG
Found at i:18271474 original size:20 final size:21
Alignment explanation
Indices: 18271446--18271491 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
18271436 TTCAAACTAA
18271446 AAAAATTTAAATAATAAAAT-
1 AAAAATTTAAATAATAAAATG
* *
18271466 AAAAGTTTAAATATTAAAATG
1 AAAAATTTAAATAATAAAATG
18271487 AAAAA
1 AAAAA
18271492 AAATAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.28
Consensus pattern (21 bp):
AAAAATTTAAATAATAAAATG
Found at i:18276153 original size:12 final size:12
Alignment explanation
Indices: 18276136--18276161 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18276126 TCAAATTAAG
18276136 TAACTTTTTATT
1 TAACTTTTTATT
18276148 TAACTTTTTATT
1 TAACTTTTTATT
18276160 TA
1 TA
18276162 GTTCACTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (12 bp):
TAACTTTTTATT
Found at i:18280669 original size:21 final size:20
Alignment explanation
Indices: 18280640--18280688 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 20
18280630 TCTCTAAAAT
18280640 TTTGATAAA-TATTTATATTTA
1 TTTG-TAAAGTATTT-TATTTA
18280661 TCTTGTAAATGTATTTTATTTA
1 T-TTGTAAA-GTATTTTATTTA
18280683 TTTGTA
1 TTTGTA
18280689 GAGGCAACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 10 0.40
22 10 0.40
23 5 0.20
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.59
Consensus pattern (20 bp):
TTTGTAAAGTATTTTATTTA
Found at i:18282020 original size:94 final size:95
Alignment explanation
Indices: 18281859--18282050 Score: 377
Period size: 94 Copynumber: 2.0 Consensus size: 95
18281849 ATATATATAT
18281859 ATTATTTTAGCTTTTAATAATATTATTAATTACATAGCTAAGACAATATAAAAAAGAGTTGGCAA
1 ATTATTTTAGCTTTTAATAATATTATTAATTACATAGCTAAGACAATATAAAAAAGAGTTGGCAA
18281924 CTTTACAACTTTACCTACATTC-TAAATTA
66 CTTTACAACTTTACCTACATTCATAAATTA
18281953 ATTATTTTAGCTTTTAATAATATTATTAATTACATAGCTAAGACAATATAAAAAAGAGTTGGCAA
1 ATTATTTTAGCTTTTAATAATATTATTAATTACATAGCTAAGACAATATAAAAAAGAGTTGGCAA
18282018 CTTTACAACTTTACCTACATTCATAAATTA
66 CTTTACAACTTTACCTACATTCATAAATTA
18282048 ATT
1 ATT
18282051 TCATAAAATG
Statistics
Matches: 97, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
94 87 0.90
95 10 0.10
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.39
Consensus pattern (95 bp):
ATTATTTTAGCTTTTAATAATATTATTAATTACATAGCTAAGACAATATAAAAAAGAGTTGGCAA
CTTTACAACTTTACCTACATTCATAAATTA
Found at i:18282232 original size:21 final size:20
Alignment explanation
Indices: 18282203--18282251 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 20
18282193 TCTCTAAAAT
18282203 TTTGATAAA-TATTTATATTTA
1 TTTG-TAAAGTATTT-TATTTA
18282224 TCTTGTAAATGTATTTTATTTA
1 T-TTGTAAA-GTATTTTATTTA
18282246 TTTGTA
1 TTTGTA
18282252 GAGGCAACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 10 0.40
22 10 0.40
23 5 0.20
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.59
Consensus pattern (20 bp):
TTTGTAAAGTATTTTATTTA
Found at i:18289444 original size:2 final size:2
Alignment explanation
Indices: 18289439--18289480 Score: 59
Period size: 2 Copynumber: 20.5 Consensus size: 2
18289429 TTTGCATGGT
18289439 TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA TA -A TGA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA T-A TA TA T
18289481 TACTAAATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 1 0.03
2 32 0.86
3 4 0.11
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (2 bp):
TA
Found at i:18292347 original size:34 final size:34
Alignment explanation
Indices: 18292309--18292378 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
18292299 TAAAATACTA
* *
18292309 ATTTTA-TAAATTTTCTATAATTTTCACAATTTTT
1 ATTTTATTAAATTTTCTATAAATTT-AAAATTTTT
* *
18292343 ATTTTATTATATTTTTTATAAATTTAAAATTTTT
1 ATTTTATTAAATTTTCTATAAATTTAAAATTTTT
18292377 AT
1 AT
18292379 AATTTTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 16 0.52
35 15 0.48
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.61
Consensus pattern (34 bp):
ATTTTATTAAATTTTCTATAAATTTAAAATTTTT
Found at i:18292472 original size:31 final size:31
Alignment explanation
Indices: 18292437--18292496 Score: 104
Period size: 31 Copynumber: 1.9 Consensus size: 31
18292427 TGTTAAAAAT
18292437 TCTTATAAAATAA-TTAAAAACTCAATTAAGA
1 TCTTATAAAATAATTTAAAAA-TCAATTAAGA
18292468 TCTTATAAAATAATTTAAAAATCAATTAA
1 TCTTATAAAATAATTTAAAAATCAATTAA
18292497 ACAGTCACGT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
31 21 0.75
32 7 0.25
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.35
Consensus pattern (31 bp):
TCTTATAAAATAATTTAAAAATCAATTAAGA
Found at i:18301437 original size:50 final size:50
Alignment explanation
Indices: 18301378--18301479 Score: 179
Period size: 50 Copynumber: 2.0 Consensus size: 50
18301368 TTTGCCAGCT
18301378 CAACATTAGCATCTACAAAAACAATTTAAAAA-ATCCACATGTATCCAGTC
1 CAACATTAGCATCTACAAAAACAA-TTAAAAATATCCACATGTATCCAGTC
*
18301428 CAACATTAGCATCTGCAAAAACAATTAAAAATATCCACATGTATCCAGTC
1 CAACATTAGCATCTACAAAAACAATTAAAAATATCCACATGTATCCAGTC
18301478 CA
1 CA
18301480 CCTTGTTGAG
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
49 7 0.14
50 43 0.86
ACGTcount: A:0.45, C:0.25, G:0.07, T:0.24
Consensus pattern (50 bp):
CAACATTAGCATCTACAAAAACAATTAAAAATATCCACATGTATCCAGTC
Found at i:18308647 original size:23 final size:24
Alignment explanation
Indices: 18308603--18308648 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
18308593 ACTTGATTTA
* *
18308603 ATAATTTTTTAATTCATTAAATAAT
1 ATAATTTTATAATT-ATAAAATAAT
18308628 ATAATTTTATAATT-TAAAATA
1 ATAATTTTATAATTATAAAATA
18308649 TTTTTACTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
25 13 0.68
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (24 bp):
ATAATTTTATAATTATAAAATAAT
Found at i:18321768 original size:15 final size:15
Alignment explanation
Indices: 18321737--18321767 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
18321727 AAAACTATTC
18321737 TTCTTTTTTCTTTTT
1 TTCTTTTTTCTTTTT
18321752 TTCTTTTTT-TTTTT
1 TTCTTTTTTCTTTTT
18321766 TT
1 TT
18321768 TTGGTTTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TTCTTTTTTCTTTTT
Found at i:18321769 original size:8 final size:8
Alignment explanation
Indices: 18321740--18321768 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
18321730 ACTATTCTTC
18321740 TTTTTTCT
1 TTTTTTCT
18321748 TTTTTTCT
1 TTTTTTCT
18321756 TTTTTT-T
1 TTTTTTCT
18321763 TTTTTT
1 TTTTTT
18321769 TGGTTTTGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (8 bp):
TTTTTTCT
Found at i:18323426 original size:15 final size:16
Alignment explanation
Indices: 18323396--18323426 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
18323386 AGTAAAAGTT
18323396 AATTTAATTATTGATA
1 AATTTAATTATTGATA
18323412 AATTTAATT-TTGATA
1 AATTTAATTATTGATA
18323427 CTCAAATAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (16 bp):
AATTTAATTATTGATA
Found at i:18327344 original size:17 final size:18
Alignment explanation
Indices: 18327309--18327352 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
18327299 ATTTAAAATT
18327309 TATTTAAAAATACAAAAA
1 TATTTAAAAATACAAAAA
*
18327327 TATTTCAAAATA-AAAAA
1 TATTTAAAAATACAAAAA
18327344 TATTATAAA
1 TATT-TAAA
18327353 GTTAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
TATTTAAAAATACAAAAA
Found at i:18327588 original size:25 final size:26
Alignment explanation
Indices: 18327538--18327589 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
18327528 GTAAACTTTG
* *
18327538 ATTTATAAAGTTTTAAAAATATTAAA
1 ATTTATAAAGTTTAAAAAATAGTAAA
*
18327564 ATTTCTAAA-TTTAAAAAATAGTAAA
1 ATTTATAAAGTTTAAAAAATAGTAAA
18327589 A
1 A
18327590 ATTAGTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (26 bp):
ATTTATAAAGTTTAAAAAATAGTAAA
Found at i:18327590 original size:26 final size:26
Alignment explanation
Indices: 18327538--18327592 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
18327528 GTAAACTTTG
* *
18327538 ATTTATAAAGTTTTAAAAATATTAAA
1 ATTTATAAAGTTTAAAAAATATAAAA
*
18327564 ATTTCTAAA-TTTAAAAAATAGTAAAA
1 ATTTATAAAGTTTAAAAAATA-TAAAA
18327590 ATT
1 ATT
18327593 AGTTTTTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 10 0.40
26 15 0.60
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.40
Consensus pattern (26 bp):
ATTTATAAAGTTTAAAAAATATAAAA
Found at i:18328231 original size:15 final size:14
Alignment explanation
Indices: 18328202--18328234 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
18328192 AGCTTTTTTT
18328202 TCTTTTTCTTCCTC
1 TCTTTTTCTTCCTC
*
18328216 TCTTTTTCTT-ATC
1 TCTTTTTCTTCCTC
18328229 TCTTTT
1 TCTTTT
18328235 ATTTCATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.70
Consensus pattern (14 bp):
TCTTTTTCTTCCTC
Found at i:18337556 original size:16 final size:17
Alignment explanation
Indices: 18337525--18337558 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
18337515 AAAATTAATG
*
18337525 ATTAAATTTAATAAAAA
1 ATTAAATTTAACAAAAA
18337542 ATTAAA-TTAACAAAAA
1 ATTAAATTTAACAAAAA
18337558 A
1 A
18337559 AATTATAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
ATTAAATTTAACAAAAA
Found at i:18342623 original size:668 final size:668
Alignment explanation
Indices: 18341349--18342678 Score: 2660
Period size: 668 Copynumber: 2.0 Consensus size: 668
18341339 AGGATTAAAT
18341349 AAGAAATTAAATTAATTAAATATGGAAATAAGCTAATTTCATCTTATTTCATCATCTTCCCCAAA
1 AAGAAATTAAATTAATTAAATATGGAAATAAGCTAATTTCATCTTATTTCATCATCTTCCCCAAA
18341414 ATAAAATACATGGAAACCCTAGCTAAGAGAAAGTGAGTTCAAGCAAGTTTTTTTGGGTCAATTAG
66 ATAAAATACATGGAAACCCTAGCTAAGAGAAAGTGAGTTCAAGCAAGTTTTTTTGGGTCAATTAG
18341479 GTATGAATTTATGTCCCGTTTTTAGTAAATTTTATATTTTCAAGATCGTAATAATCTAATCTATC
131 GTATGAATTTATGTCCCGTTTTTAGTAAATTTTATATTTTCAAGATCGTAATAATCTAATCTATC
18341544 TATTTTGGGGATCAATTTGCAAATTTATCAAAGTATAAATTTTTTTCATGGATCAGAATGCTGAA
196 TATTTTGGGGATCAATTTGCAAATTTATCAAAGTATAAATTTTTTTCATGGATCAGAATGCTGAA
18341609 ATTTTGAAATTTATGGTAGAAAATGAAAGGTTATTGATAGACAAACAACTTTTGTAACAGAAATT
261 ATTTTGAAATTTATGGTAGAAAATGAAAGGTTATTGATAGACAAACAACTTTTGTAACAGAAATT
18341674 TTCATGAAATTGTGATTTTAGGACTAAATTGAAAAGATATAAAATTCATGGAATTTTTTTGAATT
326 TTCATGAAATTGTGATTTTAGGACTAAATTGAAAAGATATAAAATTCATGGAATTTTTTTGAATT
18341739 TTGTGAAATACATGGGCTGTAAATGTTATATGAAAAATTTGGTTAGGCTTGGAATAAGAATTAAA
391 TTGTGAAATACATGGGCTGTAAATGTTATATGAAAAATTTGGTTAGGCTTGGAATAAGAATTAAA
18341804 TTGCATGAATTTCATTTTCCGAGCCTAGGGATGAAATTGGAATTAATCAAAAGTACAGGGGCAAA
456 TTGCATGAATTTCATTTTCCGAGCCTAGGGATGAAATTGGAATTAATCAAAAGTACAGGGGCAAA
18341869 ATGGTACTTTTGCCTAATATGTAAATTGGACTGAATTGGATATTAAATGTGTTAAATTGATGTTA
521 ATGGTACTTTTGCCTAATATGTAAATTGGACTGAATTGGATATTAAATGTGTTAAATTGATGTTA
18341934 AATTCATTTATATAGATCCAGAAATATCAAATGAAAAGTTAGATCGAGGAAAAGAAAAAGTATCA
586 AATTCATTTATATAGATCCAGAAATATCAAATGAAAAGTTAGATCGAGGAAAAGAAAAAGTATCA
18341999 GATTAGTAGATCGAGGAA
651 GATTAGTAGATCGAGGAA
18342017 AAGAAATTAAATTAATTAAATATGGAAATAAGCTAATTTCATCTTATTTCATCATCTTCCCCAAA
1 AAGAAATTAAATTAATTAAATATGGAAATAAGCTAATTTCATCTTATTTCATCATCTTCCCCAAA
18342082 ATAAAATACATGGAAACCCTAGCTAAGAGAAAGTGAGTTCAAGCAAGTTTTTTTGGGTCAATTAG
66 ATAAAATACATGGAAACCCTAGCTAAGAGAAAGTGAGTTCAAGCAAGTTTTTTTGGGTCAATTAG
18342147 GTATGAATTTATGTCCCGTTTTTAGTAAATTTTATATTTTCAAGATCGTAATAATCTAATCTATC
131 GTATGAATTTATGTCCCGTTTTTAGTAAATTTTATATTTTCAAGATCGTAATAATCTAATCTATC
18342212 TATTTTGGGGATCAATTTGCAAATTTATCAAAGTATAAATTTTTTTCATGGATCAGAATGCTGAA
196 TATTTTGGGGATCAATTTGCAAATTTATCAAAGTATAAATTTTTTTCATGGATCAGAATGCTGAA
18342277 ATTTTGAAATTTATGGTAGAAAATGAAAGGTTATTGATAGACAAACAACTTTTGTAACAGAAATT
261 ATTTTGAAATTTATGGTAGAAAATGAAAGGTTATTGATAGACAAACAACTTTTGTAACAGAAATT
18342342 TTCATGAAATTGTGATTTTAGGACTAAATTGAAAAGATATAAAATTCATGGAATTTTTTTGAATT
326 TTCATGAAATTGTGATTTTAGGACTAAATTGAAAAGATATAAAATTCATGGAATTTTTTTGAATT
18342407 TTGTGAAATACATGGGCTGTAAATGTTATATGAAAAATTTGGTTAGGCTTGGAATAAGAATTAAA
391 TTGTGAAATACATGGGCTGTAAATGTTATATGAAAAATTTGGTTAGGCTTGGAATAAGAATTAAA
18342472 TTGCATGAATTTCATTTTCCGAGCCTAGGGATGAAATTGGAATTAATCAAAAGTACAGGGGCAAA
456 TTGCATGAATTTCATTTTCCGAGCCTAGGGATGAAATTGGAATTAATCAAAAGTACAGGGGCAAA
18342537 ATGGTACTTTTGCCTAATATGTAAATTGGACTGAATTGGATATTAAATGTGTTAAATTGATGTTA
521 ATGGTACTTTTGCCTAATATGTAAATTGGACTGAATTGGATATTAAATGTGTTAAATTGATGTTA
18342602 AATTCATTTATATAGATCCAGAAATATCAAATGAAAAGTTAGATCGAGGAAAAGAAAAAGTATCA
586 AATTCATTTATATAGATCCAGAAATATCAAATGAAAAGTTAGATCGAGGAAAAGAAAAAGTATCA
18342667 GATTAGTAGATC
651 GATTAGTAGATC
18342679 TCGTATACGA
Statistics
Matches: 662, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
668 662 1.00
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.35
Consensus pattern (668 bp):
AAGAAATTAAATTAATTAAATATGGAAATAAGCTAATTTCATCTTATTTCATCATCTTCCCCAAA
ATAAAATACATGGAAACCCTAGCTAAGAGAAAGTGAGTTCAAGCAAGTTTTTTTGGGTCAATTAG
GTATGAATTTATGTCCCGTTTTTAGTAAATTTTATATTTTCAAGATCGTAATAATCTAATCTATC
TATTTTGGGGATCAATTTGCAAATTTATCAAAGTATAAATTTTTTTCATGGATCAGAATGCTGAA
ATTTTGAAATTTATGGTAGAAAATGAAAGGTTATTGATAGACAAACAACTTTTGTAACAGAAATT
TTCATGAAATTGTGATTTTAGGACTAAATTGAAAAGATATAAAATTCATGGAATTTTTTTGAATT
TTGTGAAATACATGGGCTGTAAATGTTATATGAAAAATTTGGTTAGGCTTGGAATAAGAATTAAA
TTGCATGAATTTCATTTTCCGAGCCTAGGGATGAAATTGGAATTAATCAAAAGTACAGGGGCAAA
ATGGTACTTTTGCCTAATATGTAAATTGGACTGAATTGGATATTAAATGTGTTAAATTGATGTTA
AATTCATTTATATAGATCCAGAAATATCAAATGAAAAGTTAGATCGAGGAAAAGAAAAAGTATCA
GATTAGTAGATCGAGGAA
Found at i:18343659 original size:714 final size:714
Alignment explanation
Indices: 18342291--18343709 Score: 2822
Period size: 714 Copynumber: 2.0 Consensus size: 714
18342281 TGAAATTTAT
18342291 GGTAGAAAATGAAAGGTTATTGATAGACAAACAACTTTTGTAACAGAAATTTTCATGAAATTGTG
1 GGTAGAAAATGAAAGGTTATTGATAGACAAACAACTTTTGTAACAGAAATTTTCATGAAATTGTG
18342356 ATTTTAGGACTAAATTGAAAAGATATAAAATTCATGGAATTTTTTTGAATTTTGTGAAATACATG
66 ATTTTAGGACTAAATTGAAAAGATATAAAATTCATGGAATTTTTTTGAATTTTGTGAAATACATG
18342421 GGCTGTAAATGTTATATGAAAAATTTGGTTAGGCTTGGAATAAGAATTAAATTGCATGAATTTCA
131 GGCTGTAAATGTTATATGAAAAATTTGGTTAGGCTTGGAATAAGAATTAAATTGCATGAATTTCA
18342486 TTTTCCGAGCCTAGGGATGAAATTGGAATTAATCAAAAGTACAGGGGCAAAATGGTACTTTTGCC
196 TTTTCCGAGCCTAGGGATGAAATTGGAATTAATCAAAAGTACAGGGGCAAAATGGTACTTTTGCC
18342551 TAATATGTAAATTGGACTGAATTGGATATTAAATGTGTTAAATTGATGTTAAATTCATTTATATA
261 TAATATGTAAATTGGACTGAATTGGATATTAAATGTGTTAAATTGATGTTAAATTCATTTATATA
18342616 GATCCAGAAATATCAAATGAAAAGTTAGATCGAGGAAAAGAAAAAGTATCAGATTAGTAGATCTC
326 GATCCAGAAATATCAAATGAAAAGTTAGATCGAGGAAAAGAAAAAGTATCAGATTAGTAGATCTC
18342681 GTATACGAGTAAGTGACGGGGTAAGTTCATGAAAGTAAAGTGTATGTTTATATGTTTAAATTGAA
391 GTATACGAGTAAGTGACGGGGTAAGTTCATGAAAGTAAAGTGTATGTTTATATGTTTAAATTGAA
18342746 TGTTATAATTGTGAAATGTATGATTGCCATATATAAACATTAATCACATACCCGATCATGTTTGA
456 TGTTATAATTGTGAAATGTATGATTGCCATATATAAACATTAATCACATACCCGATCATGTTTGA
18342811 TAAGTGCTAAGTCCTGTTTGAATAAATGAAATTCGATGGATACAGGATTTCCCATATAGGTTGTG
521 TAAGTGCTAAGTCCTGTTTGAATAAATGAAATTCGATGGATACAGGATTTCCCATATAGGTTGTG
18342876 GTCCTGCATATGTTGCAGACACACTATAGCTCTTACGAGCATCCTGTTATAAGCCCTCTCGAGCA
586 GTCCTGCATATGTTGCAGACACACTATAGCTCTTACGAGCATCCTGTTATAAGCCCTCTCGAGCA
18342941 TCTTATTACATGGTTCCTGTGAGCATCCCGGTCAATATTGATCCTGCATGTGTTGCATACCGCG
651 TCTTATTACATGGTTCCTGTGAGCATCCCGGTCAATATTGATCCTGCATGTGTTGCATACCGCG
18343005 GGTAGAAAATGAAAGGTTATTGATAGACAAACAACTTTTGTAACAGAAATTTTCATGAAATTGTG
1 GGTAGAAAATGAAAGGTTATTGATAGACAAACAACTTTTGTAACAGAAATTTTCATGAAATTGTG
18343070 ATTTTAGGACTAAATTGAAAAGATATAAAATTCATGGAATTTTTTTGAATTTTGTGAAATACATG
66 ATTTTAGGACTAAATTGAAAAGATATAAAATTCATGGAATTTTTTTGAATTTTGTGAAATACATG
18343135 GGCTGTAAATGTTATATGAAAAATTTGGTTAGGCTTGGAATAAGAATTAAATTGCATGAATTTCA
131 GGCTGTAAATGTTATATGAAAAATTTGGTTAGGCTTGGAATAAGAATTAAATTGCATGAATTTCA
18343200 TTTTCCGAGCCTAGGGATGAAATTGGAATTAATCAAAAGTACAGGGGCAAAATGGTACTTTTGCC
196 TTTTCCGAGCCTAGGGATGAAATTGGAATTAATCAAAAGTACAGGGGCAAAATGGTACTTTTGCC
18343265 TAATATGTAAATTGGACTGAATTGGATATTAAATGTGTTAAATTGATGTTAAATTCATTTATATA
261 TAATATGTAAATTGGACTGAATTGGATATTAAATGTGTTAAATTGATGTTAAATTCATTTATATA
18343330 GATCCAGAAATATCAAATGAAAAGTTAGATCGAGGAAAAG-AAAAGTATCAGATTTAGTAGATCT
326 GATCCAGAAATATCAAATGAAAAGTTAGATCGAGGAAAAGAAAAAGTATCAGA-TTAGTAGATCT
18343394 CGTATACGAGTAAGTGACGGGGTAAGTTCATGAAAGTAAAGTGTATGTTTATATGTTTAAATTGA
390 CGTATACGAGTAAGTGACGGGGTAAGTTCATGAAAGTAAAGTGTATGTTTATATGTTTAAATTGA
18343459 ATGTTATAATTGTGAAATGTATGATTGCCATATATAAACATTAATCACATACCCGATCATGTTTG
455 ATGTTATAATTGTGAAATGTATGATTGCCATATATAAACATTAATCACATACCCGATCATGTTTG
18343524 ATAAGTGCTAAGTCCTGTTTGAATAAATGAAATTCGATGGATACAGGATTTCCCATATAGGTTGT
520 ATAAGTGCTAAGTCCTGTTTGAATAAATGAAATTCGATGGATACAGGATTTCCCATATAGGTTGT
18343589 GGTCCTGCATATGTTGCAGACACACTATAGCTCTTACGAGCATCCTGTTATAAGCCCTCTCGAGC
585 GGTCCTGCATATGTTGCAGACACACTATAGCTCTTACGAGCATCCTGTTATAAGCCCTCTCGAGC
18343654 ATCTTATTACATGGTTCCTGTGAGCATCCCGGTCAATATTGATCCTGCATGTGTTG
650 ATCTTATTACATGGTTCCTGTGAGCATCCCGGTCAATATTGATCCTGCATGTGTTG
18343710 TGGACATACC
Statistics
Matches: 704, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
713 12 0.02
714 692 0.98
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (714 bp):
GGTAGAAAATGAAAGGTTATTGATAGACAAACAACTTTTGTAACAGAAATTTTCATGAAATTGTG
ATTTTAGGACTAAATTGAAAAGATATAAAATTCATGGAATTTTTTTGAATTTTGTGAAATACATG
GGCTGTAAATGTTATATGAAAAATTTGGTTAGGCTTGGAATAAGAATTAAATTGCATGAATTTCA
TTTTCCGAGCCTAGGGATGAAATTGGAATTAATCAAAAGTACAGGGGCAAAATGGTACTTTTGCC
TAATATGTAAATTGGACTGAATTGGATATTAAATGTGTTAAATTGATGTTAAATTCATTTATATA
GATCCAGAAATATCAAATGAAAAGTTAGATCGAGGAAAAGAAAAAGTATCAGATTAGTAGATCTC
GTATACGAGTAAGTGACGGGGTAAGTTCATGAAAGTAAAGTGTATGTTTATATGTTTAAATTGAA
TGTTATAATTGTGAAATGTATGATTGCCATATATAAACATTAATCACATACCCGATCATGTTTGA
TAAGTGCTAAGTCCTGTTTGAATAAATGAAATTCGATGGATACAGGATTTCCCATATAGGTTGTG
GTCCTGCATATGTTGCAGACACACTATAGCTCTTACGAGCATCCTGTTATAAGCCCTCTCGAGCA
TCTTATTACATGGTTCCTGTGAGCATCCCGGTCAATATTGATCCTGCATGTGTTGCATACCGCG
Found at i:18346902 original size:20 final size:20
Alignment explanation
Indices: 18346858--18346902 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
18346848 GAAACGAAAC
18346858 AGAAA-GAAAGAAAGAAAAG
1 AGAAAGGAAAGAAAGAAAAG
* * *
18346877 AAAAAGGAAAGAAAGGAAGG
1 AGAAAGGAAAGAAAGAAAAG
18346897 AGAAAG
1 AGAAAG
18346903 CCACGACCTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (20 bp):
AGAAAGGAAAGAAAGAAAAG
Done.