Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008430.1 Hibiscus syriacus cultivar Beakdansim tig00111220_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1186098
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 6
Found at i:1029071 original size:31 final size:31
Alignment explanation
Indices: 1029033--1029188 Score: 233
Period size: 31 Copynumber: 5.0 Consensus size: 31
1029023 CCCGAAGGAC
* *
1029033 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TTCCGAAGAACATAGGTAAA
* *
1029064 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
*
1029095 CAGTCCGTATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
*
1029126 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
*
1029157 CAGTCCGTATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1029188 C
1 C
1029189 CCTCGACCCT
Statistics
Matches: 113, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
31 112 0.99
32 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:1029130 original size:62 final size:62
Alignment explanation
Indices: 1029044--1029188 Score: 263
Period size: 62 Copynumber: 2.3 Consensus size: 62
1029034 AGTCCATAGA
* * *
1029044 TTCCGAAGAACCTAGGTAATCAGTCCATATGTCCCGAAGGACATAGGTAAACAGTCCGTATG
1 TTCCGAAGAACATAGGTAAACAGTCCATATGTCCCGAAGAACATAGGTAAACAGTCCGTATG
1029106 TTCCGAAGAACATAGGTAAACAGTCCATATGTCCCGAAGAACATAGGTAAACAGTCCGTATG
1 TTCCGAAGAACATAGGTAAACAGTCCATATGTCCCGAAGAACATAGGTAAACAGTCCGTATG
1029168 TTCCGAAGAACATAGGTAAAC
1 TTCCGAAGAACATAGGTAAAC
1029189 CCTCGACCCT
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 80 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (62 bp):
TTCCGAAGAACATAGGTAAACAGTCCATATGTCCCGAAGAACATAGGTAAACAGTCCGTATG
Found at i:1029430 original size:23 final size:24
Alignment explanation
Indices: 1029404--1029450 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
1029394 GTATACTTGT
*
1029404 TTTCACATATATA-TTTCATATCA
1 TTTCACATATACACTTTCATATCA
1029427 TTTCACATATACACTTTCATATCA
1 TTTCACATATACACTTTCATATCA
1029451 CATGCCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTCACATATACACTTTCATATCA
Found at i:1030000 original size:21 final size:21
Alignment explanation
Indices: 1029976--1030021 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
1029966 AATTCTGTCG
*
1029976 CTTGAAGGGGTATCGATTCCC
1 CTTGAAGGGGTACCGATTCCC
*
1029997 CTTGAATGGGTACCGATTCCC
1 CTTGAAGGGGTACCGATTCCC
1030018 CTTG
1 CTTG
1030022 CCCAGAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.17, C:0.26, G:0.26, T:0.30
Consensus pattern (21 bp):
CTTGAAGGGGTACCGATTCCC
Found at i:1033256 original size:31 final size:31
Alignment explanation
Indices: 1033218--1033373 Score: 233
Period size: 31 Copynumber: 5.0 Consensus size: 31
1033208 CCCGAAGGAC
* *
1033218 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TTCCGAAGAACATAGGTAAA
* *
1033249 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
*
1033280 CAGTCCGTATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
*
1033311 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
*
1033342 CAGTCCGTATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1033373 C
1 C
1033374 CCTCGACCCT
Statistics
Matches: 113, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
31 112 0.99
32 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:1033315 original size:62 final size:62
Alignment explanation
Indices: 1033229--1033373 Score: 263
Period size: 62 Copynumber: 2.3 Consensus size: 62
1033219 AGTCCATAGA
* * *
1033229 TTCCGAAGAACCTAGGTAATCAGTCCATATGTCCCGAAGGACATAGGTAAACAGTCCGTATG
1 TTCCGAAGAACATAGGTAAACAGTCCATATGTCCCGAAGAACATAGGTAAACAGTCCGTATG
1033291 TTCCGAAGAACATAGGTAAACAGTCCATATGTCCCGAAGAACATAGGTAAACAGTCCGTATG
1 TTCCGAAGAACATAGGTAAACAGTCCATATGTCCCGAAGAACATAGGTAAACAGTCCGTATG
1033353 TTCCGAAGAACATAGGTAAAC
1 TTCCGAAGAACATAGGTAAAC
1033374 CCTCGACCCT
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 80 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (62 bp):
TTCCGAAGAACATAGGTAAACAGTCCATATGTCCCGAAGAACATAGGTAAACAGTCCGTATG
Found at i:1033615 original size:23 final size:24
Alignment explanation
Indices: 1033589--1033635 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
1033579 GTATACTTGT
*
1033589 TTTCACATATATA-TTTCATATCA
1 TTTCACATATACACTTTCATATCA
1033612 TTTCACATATACACTTTCATATCA
1 TTTCACATATACACTTTCATATCA
1033636 CATGCCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTCACATATACACTTTCATATCA
Found at i:1034194 original size:21 final size:21
Alignment explanation
Indices: 1034168--1034213 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
1034158 AATTCTGTCG
* *
1034168 CTTGAAGGGGTATCGGTTCCC
1 CTTGAAGGGGTACCGATTCCC
*
1034189 CTTGAATGGGTACCGATTCCC
1 CTTGAAGGGGTACCGATTCCC
1034210 CTTG
1 CTTG
1034214 CCCAGAAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.15, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
CTTGAAGGGGTACCGATTCCC
Found at i:1037708 original size:22 final size:22
Alignment explanation
Indices: 1037683--1037733 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
1037673 ACCGAAAGCA
1037683 GCCTCCAAATCCATCGAAAGTG
1 GCCTCCAAATCCATCGAAAGTG
1037705 GCCTCCAAATCCATCGAAAGTG
1 GCCTCCAAATCCATCGAAAGTG
1037727 GCCTCCA
1 GCCTCCA
1037734 TTTGTTGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.29, C:0.35, G:0.18, T:0.18
Consensus pattern (22 bp):
GCCTCCAAATCCATCGAAAGTG
Found at i:1040288 original size:22 final size:22
Alignment explanation
Indices: 1040261--1040331 Score: 72
Period size: 22 Copynumber: 3.3 Consensus size: 22
1040251 TATAACTCAT
1040261 ATATAATTTCACAAAGAAACAC
1 ATATAATTTCACAAAGAAACAC
** * * ** *
1040283 ATATAACATCATATA-ATTCAT
1 ATATAATTTCACAAAGAAACAC
1040304 ATATAATTTCACAAAGAAACAC
1 ATATAATTTCACAAAGAAACAC
1040326 ATATAA
1 ATATAA
1040332 CATCATATAA
Statistics
Matches: 34, Mismatches: 14, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 14 0.41
22 20 0.59
ACGTcount: A:0.54, C:0.15, G:0.03, T:0.28
Consensus pattern (22 bp):
ATATAATTTCACAAAGAAACAC
Found at i:1040308 original size:43 final size:43
Alignment explanation
Indices: 1040247--1040342 Score: 183
Period size: 43 Copynumber: 2.2 Consensus size: 43
1040237 ATTTATGTGT
*
1040247 ATCATATAACTCATATATAATTTCACAAAGAAACACATATAAC
1 ATCATATAATTCATATATAATTTCACAAAGAAACACATATAAC
1040290 ATCATATAATTCATATATAATTTCACAAAGAAACACATATAAC
1 ATCATATAATTCATATATAATTTCACAAAGAAACACATATAAC
1040333 ATCATATAAT
1 ATCATATAAT
1040343 CCCTGTGAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.51, C:0.17, G:0.02, T:0.30
Consensus pattern (43 bp):
ATCATATAATTCATATATAATTTCACAAAGAAACACATATAAC
Found at i:1040635 original size:31 final size:31
Alignment explanation
Indices: 1040610--1040716 Score: 196
Period size: 31 Copynumber: 3.5 Consensus size: 31
1040600 ATATGTTCTT
*
1040610 AAGAACATAGGTAAATTGTCCATATGTCCCG
1 AAGAACATAGGTAAACTGTCCATATGTCCCG
*
1040641 AATAACATAGGTAAACTGTCCATATGTCCCG
1 AAGAACATAGGTAAACTGTCCATATGTCCCG
1040672 AAGAACATAGGTAAACTGTCCATATGTCCCG
1 AAGAACATAGGTAAACTGTCCATATGTCCCG
1040703 AAGAACATAGGTAA
1 AAGAACATAGGTAA
1040717 TCCTTTACTC
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 73 1.00
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (31 bp):
AAGAACATAGGTAAACTGTCCATATGTCCCG
Found at i:1040852 original size:33 final size:32
Alignment explanation
Indices: 1040796--1040863 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 32
1040786 ACCAGTTCAC
1040796 ATCACTTGTATAATTCTTATATGATCTCATAG
1 ATCACTTGTATAATTCTTATATGATCTCATAG
*
1040828 ATCA-TTGTATAACATTCTTGTATGATCTCATAG
1 ATCACTTGTAT-A-ATTCTTATATGATCTCATAG
1040861 ATC
1 ATC
1040864 CCTTTTTAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
31 6 0.18
32 5 0.15
33 22 0.67
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (32 bp):
ATCACTTGTATAATTCTTATATGATCTCATAG
Found at i:1043479 original size:41 final size:41
Alignment explanation
Indices: 1043429--1043874 Score: 500
Period size: 41 Copynumber: 10.8 Consensus size: 41
1043419 ACTATATTTA
** *
1043429 CGTACTTTAGTGGCGTTTTTATACAAACGTAGCTATAGAAT
1 CGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACT
* * * *
1043470 CGTATTTTAGTGGCGTTTTTATACAAATGTCGCTATAGAAT
1 CGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACT
**
1043511 CGTACTTTAGTGGCGTTTTTATACAATTGCCGCTATAGACT
1 CGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACT
* * *
1043552 AGTATTTTAGTGGCGTTTCTATACAAACGCCGCTATAGACT
1 CGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACT
* * *
1043593 CATACTTTAGTGGCGTTTTGAATACAAACGCCGCTATAAACT
1 CGTACTTTAGTGGCGTTTT-TATACAAACGCCGCTATAGACT
* * * * *
1043635 CATACTTTAGTGGCGTTTTGAATAAAAACGCCTCTAAAGACT
1 CGTACTTTAGTGGCGTTTT-TATACAAACGCCGCTATAGACT
* * * *
1043677 CGTACTTTAGTAGCATTTTTATATAAACGTCGCTATAGACT
1 CGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACT
* * *
1043718 TGTACTTTAGTGGCGTTTTTATATAAACGTCGCTATAGACT
1 CGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACT
* * *
1043759 CGTACTTTAGTGGCGTTTTGAATGCAAACGCCGCTATATACT
1 CGTACTTTAGTGGCGTTTT-TATACAAACGCCGCTATAGACT
* * *
1043801 CGTACTTTAGTGGTGTTTTGAATATAAACGCCGCTA-ATGACT
1 CGTACTTTAGTGGCGTTTT-TATACAAACGCCGCTATA-GACT
* *
1043843 CGTAC-TTAGTGGCATTTGTATTTACAAACGCC
1 CGTACTTTAGTGGCGTTT-T-TATACAAACGCC
1043875 ATAATTTTAC
Statistics
Matches: 352, Mismatches: 49, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
41 210 0.60
42 142 0.40
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (41 bp):
CGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACT
Found at i:1043713 original size:166 final size:166
Alignment explanation
Indices: 1043431--1043874 Score: 563
Period size: 166 Copynumber: 2.7 Consensus size: 166
1043421 TATATTTACG
* ** * *
1043431 TACTTTAGTGGCGTTTT-TATACAAACGTAGCTATAGAA-TCGTATTTTAGTGGCGTTTT-TATA
1 TACTTTAGTGGCGTTTTGAATACAAACGCCGCTATA-AACTCGTACTTTAGTGGCGTTTTGAATA
* * * * * * ** *
1043493 CAAATGTCGCTATAGAATCGTACTTTAGTGGCGTTTTTATACAATTGCCGCTATAGACTAGTATT
65 AAAACGCCGCTAAAGACTCGTACTTTAGTGGCATTTTTATACAAACGCCGCTATAGACTAGTACT
1043558 TTAGTGGCGTTTCTATACAAACGCCGCTATAGACTCA
130 TTAGTGGCGTTTCTATACAAACGCCGCTATAGACTCA
*
1043595 TACTTTAGTGGCGTTTTGAATACAAACGCCGCTATAAACTCATACTTTAGTGGCGTTTTGAATAA
1 TACTTTAGTGGCGTTTTGAATACAAACGCCGCTATAAACTCGTACTTTAGTGGCGTTTTGAATAA
* * * * *
1043660 AAACGCCTCTAAAGACTCGTACTTTAGTAGCATTTTTATATAAACGTCGCTATAGACTTGTACTT
66 AAACGCCGCTAAAGACTCGTACTTTAGTGGCATTTTTATACAAACGCCGCTATAGACTAGTACTT
* * * *
1043725 TAGTGGCGTTTTTATATAAACGTCGCTATAGACTCG
131 TAGTGGCGTTTCTATACAAACGCCGCTATAGACTCA
* * * *
1043761 TACTTTAGTGGCGTTTTGAATGCAAACGCCGCTATATACTCGTACTTTAGTGGTGTTTTGAATAT
1 TACTTTAGTGGCGTTTTGAATACAAACGCCGCTATAAACTCGTACTTTAGTGGCGTTTTGAATAA
* *
1043826 AAACGCCGCTAATGACTCGTAC-TTAGTGGCATTTGTATTTACAAACGCC
66 AAACGCCGCTAAAGACTCGTACTTTAGTGGCATTT-T-TATACAAACGCC
1043875 ATAATTTTAC
Statistics
Matches: 240, Mismatches: 35, Indels: 7
0.85 0.12 0.02
Matches are distributed among these distances:
164 19 0.08
165 44 0.18
166 168 0.70
167 9 0.04
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (166 bp):
TACTTTAGTGGCGTTTTGAATACAAACGCCGCTATAAACTCGTACTTTAGTGGCGTTTTGAATAA
AAACGCCGCTAAAGACTCGTACTTTAGTGGCATTTTTATACAAACGCCGCTATAGACTAGTACTT
TAGTGGCGTTTCTATACAAACGCCGCTATAGACTCA
Found at i:1047575 original size:42 final size:42
Alignment explanation
Indices: 1047508--1047672 Score: 188
Period size: 42 Copynumber: 3.9 Consensus size: 42
1047498 TAATTAGCGG
* * * *
1047508 CGTTTGTATCAAAAAATGACGCTATAGATCTAACCTTCTACGA
1 CGTTTGT-TCCAAAAACGCCGCTATAGATCTAACCTTTTACGA
*
1047551 CGTTTGTTCCTAAAACGCCGCTATAGATCTAACCTTTTAC-A
1 CGTTTGTTCCAAAAACGCCGCTATAGATCTAACCTTTTACGA
* * * * *
1047592 GCGTTTGTTCCAATAAACGCCACTATAGATCTGACTTTTTGCGG
1 -CGTTTGTTCCAA-AAACGCCGCTATAGATCTAACCTTTTACGA
*
1047636 CGTTTGTTCCAAAAACGCCGCTATACATCTCAACCTT
1 CGTTTGTTCCAAAAACGCCGCTATAGATCT-AACCTT
1047673 GTGCGGGGTT
Statistics
Matches: 103, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
41 1 0.01
42 55 0.53
43 47 0.46
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (42 bp):
CGTTTGTTCCAAAAACGCCGCTATAGATCTAACCTTTTACGA
Found at i:1047678 original size:43 final size:42
Alignment explanation
Indices: 1047504--1047683 Score: 198
Period size: 43 Copynumber: 4.2 Consensus size: 42
1047494 AATGTAATTA
* * * *
1047504 GCGGCGTTTGTATCAAAAAATGACGCTATAGATCTAACCTTCT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGATCTAACCTTTT
* * *
1047547 ACGACGTTTGTTCCTAAAACGCCGCTATAGATCTAACCTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTAACCTTTT
* * * * *
1047589 ACAGCGTTTGTTCCAATAAACGCCACTATAGATCTGACTTTTT
1 GCGGCGTTTGTTCCAA-AAACGCCGCTATAGATCTAACCTTTT
* *
1047632 GCGGCGTTTGTTCCAAAAACGCCGCTATACATCTCAACCTTGT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCT-AACCTTTT
*
1047675 GCGGGGTTT
1 GCGGCGTTT
1047684 TGGAACAAAC
Statistics
Matches: 114, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
42 55 0.48
43 59 0.52
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (42 bp):
GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTAACCTTTT
Found at i:1047768 original size:34 final size:35
Alignment explanation
Indices: 1047714--1047788 Score: 118
Period size: 34 Copynumber: 2.2 Consensus size: 35
1047704 ATATCTACCT
1047714 TTTA-CGGCATTTTTTATTCTCAAACGCCGCTAAC
1 TTTAGCGGCATTTTTTATTCTCAAACGCCGCTAAC
* *
1047748 TTTAGCGGTATTTTTT-TTCTCAAACGCTGCTAAC
1 TTTAGCGGCATTTTTTATTCTCAAACGCCGCTAAC
1047782 TTTAGCG
1 TTTAGCG
1047789 ACACTTCTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 28 0.74
35 10 0.26
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (35 bp):
TTTAGCGGCATTTTTTATTCTCAAACGCCGCTAAC
Found at i:1054305 original size:20 final size:21
Alignment explanation
Indices: 1054271--1054351 Score: 78
Period size: 20 Copynumber: 3.9 Consensus size: 21
1054261 TTAGTGCAGA
*
1054271 GGGAATCGA-TCCCCCCTGA-
1 GGGAACCGATTCCCCCCTGAG
*
1054290 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCC-CTG-AG
*
1054313 GGGAACCGATTCCCCCAT-AG
1 GGGAACCGATTCCCCCCTGAG
* *
1054333 GGGAATCGATACCCCCCTG
1 GGGAACCGATTCCCCCCTG
1054352 GGGTTCTGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
19 8 0.16
20 23 0.45
21 2 0.04
22 2 0.04
23 16 0.31
ACGTcount: A:0.22, C:0.35, G:0.26, T:0.17
Consensus pattern (21 bp):
GGGAACCGATTCCCCCCTGAG
Found at i:1058032 original size:23 final size:23
Alignment explanation
Indices: 1058006--1058069 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
1057996 GGACATTATA
* *
1058006 TGGCACTACAGTGCATTTCTACG
1 TGGCACTTCGGTGCATTTCTACG
* *
1058029 TGGCACTTCGGTGTATTTTTACG
1 TGGCACTTCGGTGCATTTCTACG
*
1058052 CGGCACTTCGGTGCATTT
1 TGGCACTTCGGTGCATTT
1058070 ACATGAGCTG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.16, C:0.23, G:0.25, T:0.36
Consensus pattern (23 bp):
TGGCACTTCGGTGCATTTCTACG
Found at i:1058463 original size:19 final size:19
Alignment explanation
Indices: 1058441--1058484 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
1058431 TAAGGATATG
1058441 AGTGATATGGTATGATAGC
1 AGTGATATGGTATGATAGC
*
1058460 AGTGATATGGTATGATAGT
1 AGTGATATGGTATGATAGC
1058479 AGTGAT
1 AGTGAT
1058485 TGTTACGACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.32, C:0.02, G:0.32, T:0.34
Consensus pattern (19 bp):
AGTGATATGGTATGATAGC
Found at i:1070196 original size:38 final size:38
Alignment explanation
Indices: 1070145--1070223 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
1070135 TAAGTTATAT
*
1070145 AACACGATCCACATTAAATGGTTGTATTTTCAGCAGCA
1 AACACGATCCACATTAAATGGCTGTATTTTCAGCAGCA
1070183 AACACGATCCACATTAAATGGCTGTATTTTCAGCAGCA
1 AACACGATCCACATTAAATGGCTGTATTTTCAGCAGCA
1070221 AAC
1 AAC
1070224 GTAGTAATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (38 bp):
AACACGATCCACATTAAATGGCTGTATTTTCAGCAGCA
Found at i:1073901 original size:2 final size:2
Alignment explanation
Indices: 1073894--1073963 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
1073884 TGTTTATTGC
1073894 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1073936 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1073964 GAGTGTTACA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1078487 original size:22 final size:21
Alignment explanation
Indices: 1078461--1078501 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1078451 CAGTATGTGC
1078461 AGGGGGAACAGATTCCCCCTGG
1 AGGGGGAAC-GATTCCCCCTGG
* *
1078483 AGGGGTATCGATTCCCCCT
1 AGGGGGAACGATTCCCCCT
1078502 AAATGAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.20, C:0.29, G:0.32, T:0.20
Consensus pattern (21 bp):
AGGGGGAACGATTCCCCCTGG
Found at i:1079176 original size:38 final size:38
Alignment explanation
Indices: 1079128--1079221 Score: 143
Period size: 38 Copynumber: 2.5 Consensus size: 38
1079118 TATAAGACAT
* * *
1079128 ATGATAGGTCCTACGGGACACATATTACATCCTTCGGG
1 ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
* *
1079166 ATGACAGGTCCTTCGGGACACAGATGACATTCTTCGGG
1 ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
1079204 ATGATAGGTCCTTCGGGA
1 ATGATAGGTCCTTCGGGA
1079222 TATTTGTACG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (38 bp):
ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
Found at i:1079414 original size:20 final size:20
Alignment explanation
Indices: 1079378--1079473 Score: 73
Period size: 20 Copynumber: 5.0 Consensus size: 20
1079368 GACATGATTT
*
1079378 TATATATATGTCATATTGAAA
1 TATATACATG-CATATTGAAA
1079399 TATATACATGCATATTGAAA
1 TATATACATGCATATTGAAA
*
1079419 TGT-T--ATG---ATT-AAA
1 TATATACATGCATATTGAAA
* *
1079432 TGGTA-AGAATGCATATTGAAA
1 T-ATATA-CATGCATATTGAAA
1079453 TATATACATGCATATTGAAA
1 TATATACATGCATATTGAAA
1079473 T
1 T
1079474 GTTATGATTA
Statistics
Matches: 61, Mismatches: 4, Indels: 21
0.71 0.05 0.24
Matches are distributed among these distances:
13 4 0.07
14 5 0.08
17 6 0.10
19 1 0.02
20 31 0.51
21 14 0.23
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.38
Consensus pattern (20 bp):
TATATACATGCATATTGAAA
Found at i:1079452 original size:54 final size:54
Alignment explanation
Indices: 1079389--1079502 Score: 228
Period size: 54 Copynumber: 2.1 Consensus size: 54
1079379 ATATATATGT
1079389 CATATTGAAATATATACATGCATATTGAAATGTTATGATTAAATGGTAAGAATG
1 CATATTGAAATATATACATGCATATTGAAATGTTATGATTAAATGGTAAGAATG
1079443 CATATTGAAATATATACATGCATATTGAAATGTTATGATTAAATGGTAAGAATG
1 CATATTGAAATATATACATGCATATTGAAATGTTATGATTAAATGGTAAGAATG
1079497 CATATT
1 CATATT
1079503 CATGAAATCT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.36
Consensus pattern (54 bp):
CATATTGAAATATATACATGCATATTGAAATGTTATGATTAAATGGTAAGAATG
Found at i:1082031 original size:30 final size:30
Alignment explanation
Indices: 1081995--1082075 Score: 126
Period size: 30 Copynumber: 2.7 Consensus size: 30
1081985 CGGATTTTTG
* * *
1081995 AAAAAATGACAGAAAACATTATTAGGTGCT
1 AAAAAATGACCGAAAATATTATTAGGCGCT
*
1082025 AAAAAATGACCGAAAATATTATTAGGCGTT
1 AAAAAATGACCGAAAATATTATTAGGCGCT
1082055 AAAAAATGACCGAAAATATTA
1 AAAAAATGACCGAAAATATTA
1082076 AGAAAAATGA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.52, C:0.10, G:0.15, T:0.23
Consensus pattern (30 bp):
AAAAAATGACCGAAAATATTATTAGGCGCT
Found at i:1082517 original size:2 final size:2
Alignment explanation
Indices: 1082510--1082548 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
1082500 TTCCCTTATC
* * *
1082510 CT CT CT CT CT GT CT CT CT CT GT CT CT CT CT GT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1082549 ATCGGTGTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.44, G:0.08, T:0.49
Consensus pattern (2 bp):
CT
Found at i:1082526 original size:10 final size:10
Alignment explanation
Indices: 1082511--1082548 Score: 76
Period size: 10 Copynumber: 3.8 Consensus size: 10
1082501 TCCCTTATCC
1082511 TCTCTCTCTG
1 TCTCTCTCTG
1082521 TCTCTCTCTG
1 TCTCTCTCTG
1082531 TCTCTCTCTG
1 TCTCTCTCTG
1082541 TCTCTCTC
1 TCTCTCTC
1082549 ATCGGTGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.00, C:0.42, G:0.08, T:0.50
Consensus pattern (10 bp):
TCTCTCTCTG
Found at i:1088250 original size:18 final size:16
Alignment explanation
Indices: 1088219--1088252 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
1088209 TCCTACAATT
1088219 CTATATAAATTAAATA
1 CTATATAAATTAAATA
1088235 CTATCATAACATTAAATA
1 CTAT-ATAA-ATTAAATA
1088253 AATAATTATT
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:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (16 bp):
CTATATAAATTAAATA
Found at i:1094273 original size:32 final size:34
Alignment explanation
Indices: 1094225--1094304 Score: 94
Period size: 35 Copynumber: 2.4 Consensus size: 34
1094215 TTTAAATAGT
*
1094225 TATTATTTTTTATATT-AAT-ATATTTATGTAAA
1 TATTATTTTTTATATTAAATAATATTTATATAAA
*
1094257 TATTATATTTTT-TATTAAAATAATATTTATATAAT
1 TATTAT-TTTTTATATT-AAATAATATTTATATAAA
1094292 TATTATTTATTTA
1 TATTATTT-TTTA
1094305 GAATTATTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
32 10 0.25
33 5 0.12
34 5 0.12
35 20 0.50
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (34 bp):
TATTATTTTTTATATTAAATAATATTTATATAAA
Found at i:1094284 original size:18 final size:20
Alignment explanation
Indices: 1094247--1094284 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
1094237 TATTAATATA
*
1094247 TTTATGTAAATATTATATTT
1 TTTATGTAAATATAATATTT
1094267 TTTAT-TAAA-ATAATATTT
1 TTTATGTAAATATAATATTT
1094285 ATATAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 4 0.24
20 5 0.29
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (20 bp):
TTTATGTAAATATAATATTT
Found at i:1094466 original size:17 final size:17
Alignment explanation
Indices: 1094444--1094497 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
1094434 AATGTTAATA
1094444 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
1094461 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
1094478 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
1094495 TTT
1 TTT
1094498 TTATAATGTA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:1096059 original size:21 final size:21
Alignment explanation
Indices: 1096029--1096076 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
1096019 GCAGGGGTAC
* *
1096029 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
1096050 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
1096071 ATGCCA
1 ATGCCA
1096077 TCTTCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:1096107 original size:21 final size:21
Alignment explanation
Indices: 1096081--1096152 Score: 110
Period size: 21 Copynumber: 3.4 Consensus size: 21
1096071 ATGCCATCTT
*
1096081 CGCAGGGTTACATTCCGAGCC
1 CGCAGGGTTACATTCCTAGCC
1096102 CGCAGGGTTACATTCCTAGCC
1 CGCAGGGTTACATTCCTAGCC
*
1096123 CGCCA-GGTTACATGCCTAGCC
1 CG-CAGGGTTACATTCCTAGCC
1096144 CGCAGGGTT
1 CGCAGGGTT
1096153 TTATACCATA
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
20 2 0.04
21 43 0.91
22 2 0.04
ACGTcount: A:0.18, C:0.33, G:0.28, T:0.21
Consensus pattern (21 bp):
CGCAGGGTTACATTCCTAGCC
Found at i:1096734 original size:33 final size:34
Alignment explanation
Indices: 1096675--1096771 Score: 133
Period size: 33 Copynumber: 2.9 Consensus size: 34
1096665 AAATGTTTTT
*
1096675 AAAATACAAATTATATTATTCGAAATTTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* * *
1096709 AAAATAAAAATAATATTATTC-AAATTTAAATTT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* *
1096742 AAAATATAAATTATAGTATTCGAAATTTAA
1 AAAATAAAAATTATATTATTCGAAATTTAA
1096772 CATTAAATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 28 0.51
34 27 0.49
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCGAAATTTAAAATA
Found at i:1096778 original size:34 final size:33
Alignment explanation
Indices: 1096673--1096778 Score: 133
Period size: 34 Copynumber: 3.2 Consensus size: 33
1096663 ATAAATGTTT
*
1096673 TTAAAATACAAATTATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTT-AAA
* *
1096707 TAAAAATAAAAATAATATTATTC-AAATTTAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAA
* *
1096739 TTTAAAATATAAATTATAGTATTCGAAATTTAACA
1 -TTAAAATAAAAATTATATTATTCGAAATTTAA-A
1096774 TTAAA
1 TTAAA
1096779 TTTCAACTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
32 3 0.05
33 25 0.40
34 33 0.53
35 1 0.02
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (33 bp):
TTAAAATAAAAATTATATTATTCGAAATTTAAA
Found at i:1097306 original size:128 final size:128
Alignment explanation
Indices: 1097066--1097805 Score: 1216
Period size: 128 Copynumber: 5.8 Consensus size: 128
1097056 TATCCATACA
* *
1097066 ATCTAGTGTCCCTGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGATGAAAT
1 ATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAAT
*** *
1097131 AATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGGTACTGATAT
66 AATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCT-GAGAAATAATAGGTACTGATAT
** * *
1097194 ATCGGGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTATGACAAAAT
1 ATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAAT
*
1097259 AATGGAAGGCACGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTACTGATAT
66 AATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTACTGATAT
* *
1097322 ATTTAGTGTCCCCGAAGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAAT
1 ATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAAT
*
1097387 AATGGAAGGCGC-CCCCCGGGAACGCGCATTCATGTCCCCTGAGAAATAATAGGTACTGATAT
66 AATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTACTGATAT
*
1097449 ATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGATGAAAT
1 ATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAAT
* *** *
1097514 AATGGAAGGCGTGCCCCCGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGGTACTGATAT
66 AATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCT-GAGAAATAATAGGTACTGATAT
** * *
1097577 ATCGGGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTATGACAAAAT
1 ATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAAT
*
1097642 AATGGAAGGCTCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTACTGATAT
66 AATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTACTGATAT
1097705 ATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAAT
1 ATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAAT
1097770 AATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT
66 AATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT
1097806 GAATAATACT
Statistics
Matches: 564, Mismatches: 44, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
127 123 0.22
128 439 0.78
129 2 0.00
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (128 bp):
ATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAAT
AATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTACTGATAT
Found at i:1097773 original size:383 final size:384
Alignment explanation
Indices: 1097066--1097805 Score: 1419
Period size: 383 Copynumber: 1.9 Consensus size: 384
1097056 TATCCATACA
*
1097066 ATCTAGTGTCCCTGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGATGAAAT
1 ATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGATGAAAT
1097131 AATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATAT
66 AATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATAT
1097196 CGGGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTATGACAAAATAA
131 CGGGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTATGACAAAATAA
*
1097261 TGGAAGGCACGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTACTGATATATTT
196 TGGAAGGCACGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTACTGATATATCT
1097326 AGTGTCCCCGAAGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATG
261 AGTGTCCCCGAAGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATG
1097391 GAAGGCGC-CCCCCGGGAACGCGCATTCATGTCCCCTGAGAAATAATAGGTACTGATAT
326 GAAGGCGCGCCCCCGGGAACGCGCATTCATGTCCCCTGAGAAATAATAGGTACTGATAT
1097449 ATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGATGAAAT
1 ATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGATGAAAT
*
1097514 AATGGAAGGCGTGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATAT
66 AATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATAT
1097579 CGGGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTATGACAAAATAA
131 CGGGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTATGACAAAATAA
*
1097644 TGGAAGGCTCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTACTGATATATCT
196 TGGAAGGCACGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTACTGATATATCT
*
1097709 AGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATG
261 AGTGTCCCCGAAGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATG
*
1097774 GAAGGCGCGCCCCCGGGAACGCGCCTTCATGT
326 GAAGGCGCGCCCCCGGGAACGCGCATTCATGT
1097806 GAATAATACT
Statistics
Matches: 350, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
383 328 0.94
384 22 0.06
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (384 bp):
ATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGATGAAAT
AATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATAT
CGGGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTATGACAAAATAA
TGGAAGGCACGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTACTGATATATCT
AGTGTCCCCGAAGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATG
GAAGGCGCGCCCCCGGGAACGCGCATTCATGTCCCCTGAGAAATAATAGGTACTGATAT
Found at i:1097778 original size:256 final size:256
Alignment explanation
Indices: 1097070--1097810 Score: 1218
Period size: 255 Copynumber: 2.9 Consensus size: 256
1097060 CATACAATCT
* *
1097070 AGTGTCCCTGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGATGAAATAATG
1 AGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATG
*** * **
1097135 GAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGGTACTGATATATCGG
66 GAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCT-GAGAAATAATAGGTACTGATATATCTA
* *
1097199 GTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTATGACAAAATAATGG
130 GTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGG
* *** **
1097264 AAGGCACGCCCCCGGGAACGCGCCTTCATGTCCCCT-GAGAAATAATAGGTACTGATATATTT
195 AAGGCGCGCCCCCGGGAACGCGCCTTCATGT-GAATAGAGAAATAATAGGTACTGATATATCG
*
1097326 AGTGTCCCCGAAGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATG
1 AGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATG
*
1097391 GAAGGCGC-CCCCCGGGAACGCGCATTCATGTCCCCTGAGAAATAATAGGTACTGATATATCTAG
66 GAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTACTGATATATCTAG
*
1097455 TGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGATGAAATAATGGA
131 TGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGA
* *
1097520 AGGCGTGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCG
196 AGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGAGAAATAATAGGTACTGATATATCG
* * *
1097581 GGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTATGACAAAATAATG
1 AGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATG
*
1097646 GAAGGCTCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTACTGATATATCTAG
66 GAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTACTGATATATCTAG
1097711 TGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGA
131 TGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGA
1097776 AGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATA
196 AGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATA
1097811 ATACTCCGAT
Statistics
Matches: 453, Mismatches: 29, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
254 1 0.00
255 228 0.50
256 224 0.49
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (256 bp):
AGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATG
GAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTACTGATATATCTAG
TGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGA
AGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGAGAAATAATAGGTACTGATATATCG
Found at i:1097896 original size:8 final size:8
Alignment explanation
Indices: 1097883--1097923 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
1097873 TCACAATCTT
1097883 TCAAATTC
1 TCAAATTC
1097891 TCAAATTC
1 TCAAATTC
* *
1097899 CCAAACTC
1 TCAAATTC
1097907 T-AAATTC
1 TCAAATTC
1097914 TCAAATTC
1 TCAAATTC
1097922 TC
1 TC
1097924 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:1101497 original size:30 final size:30
Alignment explanation
Indices: 1101319--1101480 Score: 315
Period size: 30 Copynumber: 5.4 Consensus size: 30
1101309 CCGAAGGACA
1101319 TATCCAGAGGTCATAAAGATCCTCGGTAAC
1 TATCCAGAGGTCATAAAGATCCTCGGTAAC
1101349 TATCCAGAGGTCATAAAGATCCTCGGTAAC
1 TATCCAGAGGTCATAAAGATCCTCGGTAAC
1101379 TATCCAGAGGTCATAAAGATCCTCGGTAAC
1 TATCCAGAGGTCATAAAGATCCTCGGTAAC
1101409 TATCCAGAGGTCATAAAGATCCTCGGTAAC
1 TATCCAGAGGTCATAAAGATCCTCGGTAAC
1101439 TATCCAGAGGTCATAAAGATCCTCGGTAAC
1 TATCCAGAGGTCATAAAGATCCTCGGTAAC
*
1101469 TATCCATAGGTC
1 TATCCAGAGGTC
1101481 CCGAAGAACC
Statistics
Matches: 131, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
30 131 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (30 bp):
TATCCAGAGGTCATAAAGATCCTCGGTAAC
Found at i:1101497 original size:90 final size:91
Alignment explanation
Indices: 1101319--1101505 Score: 313
Period size: 90 Copynumber: 2.1 Consensus size: 91
1101309 CCGAAGGACA
1101319 TATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTATCC
1 TATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTATCC
* * *
1101384 AGAGGTCATAAAGATCCTCGGT-AAC
66 AGAGGTCACAAAGAACCTAGGTAAAC
1101409 TATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTATCC
1 TATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTATCC
* * *
1101474 ATAGGTCCCGAAGAACCTAGGTAAAC
66 AGAGGTCACAAAGAACCTAGGTAAAC
1101500 TATCCA
1 TATCCA
1101506 TATGTTCCTT
Statistics
Matches: 90, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
90 81 0.90
91 9 0.10
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (91 bp):
TATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTATCC
AGAGGTCACAAAGAACCTAGGTAAAC
Found at i:1101520 original size:31 final size:31
Alignment explanation
Indices: 1101466--1101558 Score: 98
Period size: 31 Copynumber: 3.0 Consensus size: 31
1101456 GATCCTCGGT
* *
1101466 AACTATCCATAGGTCCCGAAGAACCTAGGTA
1 AACTATCCATATGTCCCGAAGAACATAGGTA
* **
1101497 AACTATCCATATGTTCCTTAGAACATAGGTA
1 AACTATCCATATGTCCCGAAGAACATAGGTA
* * *
1101528 TACTGTCCATATGTCTCGACAG-ACATAGGTA
1 AACTATCCATATGTCCCGA-AGAACATAGGTA
1101559 GTTCTTTGAC
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
31 48 0.96
32 2 0.04
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (31 bp):
AACTATCCATATGTCCCGAAGAACATAGGTA
Found at i:1102390 original size:21 final size:21
Alignment explanation
Indices: 1102364--1102415 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
1102354 GAGGGGGAAT
1102364 CGATTCCCCTTAAATGGGTAC
1 CGATTCCCCTTAAATGGGTAC
*
1102385 CGATTCCCCTTGAATGGGTAC
1 CGATTCCCCTTAAATGGGTAC
1102406 CGATTCCCCT
1 CGATTCCCCT
1102416 AGCCCAGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.19, C:0.33, G:0.19, T:0.29
Consensus pattern (21 bp):
CGATTCCCCTTAAATGGGTAC
Found at i:1110343 original size:20 final size:19
Alignment explanation
Indices: 1110318--1110374 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
1110308 GCAAAGCGCG
*
1110318 TTTATTTTCGCAACGCGAAT
1 TTTATTTTCGCAACAC-AAT
*
1110338 TTTATTTTCGAAACACAAT
1 TTTATTTTCGCAACACAAT
* *
1110357 ATTAATTTCGCAACACAA
1 TTTATTTTCGCAACACAA
1110375 ATGTAAACAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (19 bp):
TTTATTTTCGCAACACAAT
Found at i:1110476 original size:22 final size:22
Alignment explanation
Indices: 1110449--1110503 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
1110439 TCTCTCACTC
*
1110449 TATCCGGCGTCATCCGTCCCCA
1 TATCCGGCGACATCCGTCCCCA
* *
1110471 TCTCCGGCAACATCCGTCCCCA
1 TATCCGGCGACATCCGTCCCCA
1110493 TATCCGGCGAC
1 TATCCGGCGAC
1110504 CCCCTCTATC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.16, C:0.45, G:0.18, T:0.20
Consensus pattern (22 bp):
TATCCGGCGACATCCGTCCCCA
Found at i:1112438 original size:42 final size:42
Alignment explanation
Indices: 1112379--1112477 Score: 144
Period size: 42 Copynumber: 2.4 Consensus size: 42
1112369 CCCCCCACTT
* * *
1112379 CGAGAGCCATCACCTGATCGAGCAGATTTTACAGCTCGACAC
1 CGAGAGCCATCACCTGATCGAGCAGATTATACACCTCCACAC
* * *
1112421 CGAGAGTCATCACCTGATCGAGCCGATTATATACCTCCACAC
1 CGAGAGCCATCACCTGATCGAGCAGATTATACACCTCCACAC
1112463 CGAGAGCCATCACCT
1 CGAGAGCCATCACCT
1112478 ATTTCATCAC
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.28, C:0.33, G:0.19, T:0.19
Consensus pattern (42 bp):
CGAGAGCCATCACCTGATCGAGCAGATTATACACCTCCACAC
Found at i:1112851 original size:4 final size:4
Alignment explanation
Indices: 1112842--1112875 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
1112832 TTTTTCGGCA
* *
1112842 TTAT TTAT TTAT TTAT TTAT GTAT TAAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1112876 TTAGCGGCCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (4 bp):
TTAT
Found at i:1113046 original size:21 final size:21
Alignment explanation
Indices: 1113020--1113071 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
1113010 ATTCACCTGT
**
1113020 CATCGTTCAGGAGGCCCCTCC
1 CATCGTTCAAAAGGCCCCTCC
1113041 CATCGTTCAAAAGGCCCCTCC
1 CATCGTTCAAAAGGCCCCTCC
*
1113062 CACCGTTCAA
1 CATCGTTCAA
1113072 GAGCCCGATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.42, G:0.17, T:0.19
Consensus pattern (21 bp):
CATCGTTCAAAAGGCCCCTCC
Found at i:1117064 original size:24 final size:23
Alignment explanation
Indices: 1117001--1117052 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 23
1116991 AACATCATCA
1117001 AAATTCGAGTATTGACCAAGATC
1 AAATTCGAGTATTGACCAAGATC
* *
1117024 AAAGTCTGGGTATTGACCAAGATC
1 AAATTC-GAGTATTGACCAAGATC
1117048 AAATT
1 AAATT
1117053 TCGAATACTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.27
Consensus pattern (23 bp):
AAATTCGAGTATTGACCAAGATC
Found at i:1117914 original size:27 final size:27
Alignment explanation
Indices: 1117884--1117945 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
1117874 TGGAGATGGA
*
1117884 ATGAGTTGTGATTTAGGGATTTAGGTT
1 ATGAGTTATGATTTAGGGATTTAGGTT
1117911 ATGAGTTATGATTTAGGGATTTAGGTT
1 ATGAGTTATGATTTAGGGATTTAGGTT
1117938 ATGAGTTA
1 ATGAGTTA
1117946 CTGCTGCTGC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.44
Consensus pattern (27 bp):
ATGAGTTATGATTTAGGGATTTAGGTT
Found at i:1118027 original size:40 final size:40
Alignment explanation
Indices: 1117971--1118092 Score: 133
Period size: 40 Copynumber: 3.0 Consensus size: 40
1117961 TTATATACCC
1117971 AAAACAAAATTTGTGTTGCGAATTCGAAAATCGAGTTGC-
1 AAAACAAAATTTGTGTTGCGAATTCGAAAATCGAGTTGCG
* * * **
1118010 ACAAACAAAATTCGTGTTGCGATTTAGAAAATCTTGTTGCG
1 A-AAACAAAATTTGTGTTGCGAATTCGAAAATCGAGTTGCG
* *
1118051 AAAA-AGAAATTTGCGTTGTGAATTC-AGAAATCGAGTTGCG
1 AAAACA-AAATTTGTGTTGCGAATTCGA-AAATCGAGTTGCG
1118091 AA
1 AA
1118093 TTTGAAATTC
Statistics
Matches: 67, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
39 3 0.04
40 63 0.94
41 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (40 bp):
AAAACAAAATTTGTGTTGCGAATTCGAAAATCGAGTTGCG
Found at i:1118093 original size:20 final size:20
Alignment explanation
Indices: 1118065--1118155 Score: 62
Period size: 20 Copynumber: 4.5 Consensus size: 20
1118055 AGAAATTTGC
*
1118065 GTTGTGAATTCAGAAATCGA
1 GTTGCGAATTCAGAAATCGA
* *
1118085 GTTGCGAATT-TGAAATTCCGT
1 GTTGCGAATTCAGAAA-T-CGA
** *
1118106 GTTGCGAATTTGGAAATCGC
1 GTTGCGAATTCAGAAATCGA
*
1118126 GTTGCG-ATTGCAGAAA-CTAA
1 GTTGCGAATT-CAGAAATC-GA
1118146 GTTGCGAATT
1 GTTGCGAATT
1118156 TGGAAAATGG
Statistics
Matches: 56, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
19 8 0.14
20 28 0.50
21 16 0.29
22 4 0.07
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (20 bp):
GTTGCGAATTCAGAAATCGA
Found at i:1120256 original size:3 final size:3
Alignment explanation
Indices: 1120248--1120276 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1120238 AAGTAATTTA
1120248 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1120277 ATAGAAAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:1122292 original size:2 final size:2
Alignment explanation
Indices: 1122247--1122280 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1122237 TAGTCGGTTC
1122247 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1122281 CTTTAAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1122427 original size:12 final size:12
Alignment explanation
Indices: 1122410--1122439 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1122400 GATGAAACTT
*
1122410 ATTAAAAATATA
1 ATTAAAAATACA
1122422 ATTAAAAATACA
1 ATTAAAAATACA
1122434 ATTAAA
1 ATTAAA
1122440 GTTAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (12 bp):
ATTAAAAATACA
Found at i:1122551 original size:39 final size:38
Alignment explanation
Indices: 1122484--1122595 Score: 107
Period size: 39 Copynumber: 2.9 Consensus size: 38
1122474 GATTGCTATG
* * * *
1122484 GTGAAATAATTTAGAAAATTAACAATTTAGAATGTTATA
1 GTGAAATAATTTA-AGAATTAAGAATTTAAAATATTATA
* * * *
1122523 GTGTAATAGTTTAAGAAATTAGGAATTTAAAATATTATG
1 GTGAAATAATTTAAG-AATTAAGAATTTAAAATATTATA
* **
1122562 GTGAAATAATTTGAGAATTAAGAATAAAAAATAT
1 GTGAAATAATTTAAGAATTAAGAATTTAAAATAT
1122596 AATATAAAAT
Statistics
Matches: 58, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
38 17 0.29
39 41 0.71
ACGTcount: A:0.49, C:0.01, G:0.15, T:0.35
Consensus pattern (38 bp):
GTGAAATAATTTAAGAATTAAGAATTTAAAATATTATA
Found at i:1123055 original size:41 final size:41
Alignment explanation
Indices: 1122998--1123079 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
1122988 CGTTATCCCA
1122998 TACAAAAATTTTATGTGGCTGATATGTGTGTGTGTGTGTGT
1 TACAAAAATTTTATGTGGCTGATATGTGTGTGTGTGTGTGT
1123039 TACAAAAATTTTATGTGGCTGATATGTGTGTGTGTGTGTGT
1 TACAAAAATTTTATGTGGCTGATATGTGTGTGTGTGTGTGT
1123080 GTGCGCGCGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.22, C:0.05, G:0.29, T:0.44
Consensus pattern (41 bp):
TACAAAAATTTTATGTGGCTGATATGTGTGTGTGTGTGTGT
Found at i:1123112 original size:22 final size:22
Alignment explanation
Indices: 1123084--1123128 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
1123074 GTGTGTGTGC
1123084 GCGCGTGCGTGCGTGCGTGCGT
1 GCGCGTGCGTGCGTGCGTGCGT
1123106 GCGCGTGCGTGCGTGCGTGCGT
1 GCGCGTGCGTGCGTGCGTGCGT
1123128 G
1 G
1123129 TGTGTGTGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.00, C:0.27, G:0.51, T:0.22
Consensus pattern (22 bp):
GCGCGTGCGTGCGTGCGTGCGT
Found at i:1123113 original size:18 final size:18
Alignment explanation
Indices: 1123090--1123126 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
1123080 GTGCGCGCGT
1123090 GCGTGCGTGCGTGCGTGC
1 GCGTGCGTGCGTGCGTGC
1123108 GCGTGCGTGCGTGCGTGC
1 GCGTGCGTGCGTGCGTGC
1123126 G
1 G
1123127 TGTGTGTGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.00, C:0.27, G:0.51, T:0.22
Consensus pattern (18 bp):
GCGTGCGTGCGTGCGTGC
Found at i:1125007 original size:19 final size:19
Alignment explanation
Indices: 1124985--1125029 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
1124975 AAAATTAAGA
1124985 GATTAGTGAATTATTAATG
1 GATTAGTGAATTATTAATG
1125004 GATTAGTGAATTATTAATG
1 GATTAGTGAATTATTAATG
1125023 GATTAGT
1 GATTAGT
1125030 AAAATGGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.36, C:0.00, G:0.22, T:0.42
Consensus pattern (19 bp):
GATTAGTGAATTATTAATG
Found at i:1125457 original size:20 final size:20
Alignment explanation
Indices: 1125412--1125500 Score: 83
Period size: 20 Copynumber: 4.4 Consensus size: 20
1125402 GGATGATCAA
* *
1125412 TATCGATACTGATTTAAGAAG
1 TATCGATACTGATGT-GGAAG
*
1125433 TATCGATACTGATGTGGAGG
1 TATCGATACTGATGTGGAAG
* *
1125453 TATCGATAACAAGA-G-GAAAG
1 TATCGAT-AC-TGATGTGGAAG
*
1125473 TATCGATACTGATGTGGAGG
1 TATCGATACTGATGTGGAAG
1125493 TATCGATA
1 TATCGATA
1125501 ACAAGAGGAA
Statistics
Matches: 55, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
18 2 0.04
19 3 0.05
20 31 0.56
21 17 0.31
22 2 0.04
ACGTcount: A:0.35, C:0.10, G:0.27, T:0.28
Consensus pattern (20 bp):
TATCGATACTGATGTGGAAG
Found at i:1125477 original size:40 final size:40
Alignment explanation
Indices: 1125430--1125520 Score: 182
Period size: 40 Copynumber: 2.3 Consensus size: 40
1125420 CTGATTTAAG
1125430 AAGTATCGATACTGATGTGGAGGTATCGATAACAAGAGGA
1 AAGTATCGATACTGATGTGGAGGTATCGATAACAAGAGGA
1125470 AAGTATCGATACTGATGTGGAGGTATCGATAACAAGAGGA
1 AAGTATCGATACTGATGTGGAGGTATCGATAACAAGAGGA
1125510 AAGTATCGATA
1 AAGTATCGATA
1125521 TTGTAATTGA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.38, C:0.10, G:0.29, T:0.23
Consensus pattern (40 bp):
AAGTATCGATACTGATGTGGAGGTATCGATAACAAGAGGA
Found at i:1125515 original size:20 final size:20
Alignment explanation
Indices: 1125452--1125520 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
1125442 TGATGTGGAG
1125452 GTATCGATAACAAGAGGAAA
1 GTATCGATAACAAGAGGAAA
* * *
1125472 GTATCGAT-AC-TGATGTGGAG
1 GTATCGATAACAAGA-G-GAAA
1125492 GTATCGATAACAAGAGGAAA
1 GTATCGATAACAAGAGGAAA
1125512 GTATCGATA
1 GTATCGATA
1125521 TTGTAATTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
18 2 0.05
19 3 0.08
20 29 0.74
21 3 0.08
22 2 0.05
ACGTcount: A:0.41, C:0.10, G:0.28, T:0.22
Consensus pattern (20 bp):
GTATCGATAACAAGAGGAAA
Found at i:1126199 original size:23 final size:23
Alignment explanation
Indices: 1126169--1126236 Score: 109
Period size: 23 Copynumber: 3.0 Consensus size: 23
1126159 GTCGAGGGTT
1126169 CTATGTGGTCCTTCGGAACAAAC
1 CTATGTGGTCCTTCGGAACAAAC
*
1126192 CTATGTGGTCCTTCGGGACAAAC
1 CTATGTGGTCCTTCGGAACAAAC
* *
1126215 CTATGTGGTCATTCAGAACAAA
1 CTATGTGGTCCTTCGGAACAAA
1126237 TATGTCGCAC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (23 bp):
CTATGTGGTCCTTCGGAACAAAC
Found at i:1126388 original size:23 final size:23
Alignment explanation
Indices: 1126362--1126405 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
1126352 AAAAGTATAC
1126362 ATTGAATTTCTTATGAAATGTAA
1 ATTGAATTTCTTATGAAATGTAA
1126385 ATTGAATTTCTTATGAAATGT
1 ATTGAATTTCTTATGAAATGT
1126406 TTTCGTACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (23 bp):
ATTGAATTTCTTATGAAATGTAA
Found at i:1129727 original size:102 final size:103
Alignment explanation
Indices: 1129603--1129807 Score: 295
Period size: 102 Copynumber: 2.0 Consensus size: 103
1129593 ACTGATTGAG
* * **
1129603 TTATCTCTCCCAATTGGTTGGATTAATGCATCCAAGTCGGATGAAGAATCCCCAGTATGTCTGTG
1 TTATCTCGCCCAATTGGTTGGATTAATGCATCCAAGTCAGATGAAGAATCCCCACCATGTCTGTG
* *
1129668 GTGACCATCCTCC-GGAGAATCAGAGAAGTCATTATCA
66 GTGACAATCCTCCTGGAGAATCAGAGAAGCCATTATCA
** *
1129705 TTATCTCGCCCAATTGGTTGGATTAATGCATCCAAGTCAGATGGTGAATTCCCACCATGTCTGTG
1 TTATCTCGCCCAATTGGTTGGATTAATGCATCCAAGTCAGATGAAGAATCCCCACCATGTCTGTG
*
1129770 GTGACAATCCTCCTTTGGAGAATCAGAGATGCCATTAT
66 GTGACAATCCTCC--TGGAGAATCAGAGAAGCCATTAT
1129808 TATCATTACC
Statistics
Matches: 90, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
102 70 0.78
105 20 0.22
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.30
Consensus pattern (103 bp):
TTATCTCGCCCAATTGGTTGGATTAATGCATCCAAGTCAGATGAAGAATCCCCACCATGTCTGTG
GTGACAATCCTCCTGGAGAATCAGAGAAGCCATTATCA
Found at i:1134869 original size:20 final size:20
Alignment explanation
Indices: 1134844--1134958 Score: 106
Period size: 20 Copynumber: 5.7 Consensus size: 20
1134834 AATTGGGAAA
*
1134844 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
1134864 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
1134884 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
* *
1134905 ATTGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
1134925 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
1134945 TTCGCAACGCGATA
1 ATCGCAACGCGATA
1134959 ATACATAATC
Statistics
Matches: 79, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.03
20 63 0.80
21 12 0.15
22 2 0.03
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:1134888 original size:61 final size:61
Alignment explanation
Indices: 1134841--1134972 Score: 174
Period size: 61 Copynumber: 2.2 Consensus size: 61
1134831 GCGAATTGGG
* * * * *
1134841 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * * *
1134902 AAAATTGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
*
1134963 ATAATCGCAA
1 AAAATCGCAA
1134973 TGTGATTTTC
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:1135492 original size:20 final size:20
Alignment explanation
Indices: 1135433--1135496 Score: 83
Period size: 20 Copynumber: 3.2 Consensus size: 20
1135423 GCGATTTTAG
*
1135433 TTTCGCGTTGCGATAGTCAA
1 TTTCGCGTTGCGATAGTCAT
*
1135453 ATTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGTCAT
* **
1135473 TTTCGTGTTGCGATTTTCAT
1 TTTCGCGTTGCGATAGTCAT
1135493 TTTC
1 TTTC
1135497 AGAAACTATT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.16, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGTCAT
Found at i:1135687 original size:25 final size:24
Alignment explanation
Indices: 1135633--1135687 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
1135623 TGTTTATTAT
* *
1135633 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
1135657 TAGTTTTTGGTATAT-TTAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
1135683 TGTTT
1 TGTTT
1135688 ATTGCTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 5 0.19
25 17 0.65
26 4 0.15
ACGTcount: A:0.20, C:0.07, G:0.18, T:0.55
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:1136837 original size:18 final size:18
Alignment explanation
Indices: 1136816--1136860 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
1136806 TCCACTTCGG
*
1136816 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
1136834 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
1136852 GAGCCATCA
1 GAGCCATCA
1136861 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:1137367 original size:20 final size:20
Alignment explanation
Indices: 1137342--1137387 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
1137332 TAGTTTACTT
*
1137342 TCGCAACATGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * *
1137362 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
1137382 TCGCAA
1 TCGCAA
1137388 TGCGAAATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:1137396 original size:19 final size:20
Alignment explanation
Indices: 1137353--1137397 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
1137343 CGCAACATGA
1137353 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGCGG
* *
1137373 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAACGCGG
1137392 AAATGA
1 AAATGA
1137398 AAAGCGCAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGG
Found at i:1137405 original size:19 final size:19
Alignment explanation
Indices: 1137381--1137439 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
1137371 GGAAATGGCT
1137381 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
1137400 AGCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
1137414 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1137433 ATCGCAA
1 ATCGCAA
1137440 CGACAAAATC
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
14 9 0.29
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 16 0.52
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1137419 original size:14 final size:14
Alignment explanation
Indices: 1137397--1137453 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
1137387 ATGCGAAATG
*
1137397 AAAAGCGCAACGAC
1 AAAATCGCAACGAC
*
1137411 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
1137430 AAAATCGCAACGAC
1 AAAATCGCAACGAC
1137444 AAAATCGCAA
1 AAAATCGCAA
1137454 TGCGAATTGC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.51, C:0.23, G:0.18, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:1137423 original size:33 final size:33
Alignment explanation
Indices: 1137381--1137459 Score: 149
Period size: 33 Copynumber: 2.4 Consensus size: 33
1137371 GGAAATGGCT
1137381 ATCGCAATGCGAAATGAAAAGCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAAGCGCAACGACAAA
*
1137414 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAAGCGCAACGACAAA
1137447 ATCGCAATGCGAA
1 ATCGCAATGCGAA
1137460 TTGCGACTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAAGCGCAACGACAAA
Found at i:1137483 original size:19 final size:18
Alignment explanation
Indices: 1137459--1137626 Score: 108
Period size: 19 Copynumber: 9.6 Consensus size: 18
1137449 CGCAATGCGA
1137459 ATTGCGACTTTCATTTCGC
1 ATTGCGA-TTTCATTTCGC
*
1137478 ATTGCGATTT--TGTCG-
1 ATTGCGATTTCATTTCGC
1137493 -TTGCGATTTTCATTTCGC
1 ATTGCGA-TTTCATTTCGC
*
1137511 ATTGCGATTT--TGTCG-
1 ATTGCGATTTCATTTCGC
1137526 -TTGCGATTTTCATTTCGC
1 ATTGCGA-TTTCATTTCGC
*
1137544 ATTGCGATTT--TATCG-
1 ATTGCGATTTCATTTCGC
1137559 -TTGCGATTTGCATTTCGC
1 ATTGCGATTT-CATTTCGC
**
1137577 ATTGCGATAGCCATTTCCGC
1 ATTGCGAT-TTCATTT-CGC
* *
1137597 GTTGCGATAGTCATTTTCGC
1 ATTGCGAT-TTCA-TTTCGC
*
1137617 GTTGCGATTT
1 ATTGCGATTT
1137627 TAAGTTTCGT
Statistics
Matches: 120, Mismatches: 11, Indels: 36
0.72 0.07 0.22
Matches are distributed among these distances:
14 21 0.17
15 6 0.05
16 12 0.10
17 12 0.10
18 9 0.08
19 32 0.27
20 25 0.21
21 3 0.03
ACGTcount: A:0.14, C:0.20, G:0.21, T:0.44
Consensus pattern (18 bp):
ATTGCGATTTCATTTCGC
Found at i:1137498 original size:14 final size:14
Alignment explanation
Indices: 1137479--1137567 Score: 61
Period size: 14 Copynumber: 5.6 Consensus size: 14
1137469 TCATTTCGCA
1137479 TTGCGATTTTGTCG
1 TTGCGATTTTGTCG
*
1137493 TTGCGATTTTCATTTCG
1 TTGCGA-TTT--TGTCG
1137510 CATTGCGATTTTGTCG
1 --TTGCGATTTTGTCG
*
1137526 TTGCGATTTTCATTTCG
1 TTGCGA-TTT--TGTCG
*
1137543 CATTGCGATTTTATCG
1 --TTGCGATTTTGTCG
1137559 TTGCGATTT
1 TTGCGATTT
1137568 GCATTTCGCA
Statistics
Matches: 61, Mismatches: 4, Indels: 20
0.72 0.05 0.24
Matches are distributed among these distances:
14 21 0.34
15 6 0.10
16 8 0.13
17 8 0.13
18 6 0.10
19 12 0.20
ACGTcount: A:0.12, C:0.17, G:0.21, T:0.49
Consensus pattern (14 bp):
TTGCGATTTTGTCG
Found at i:1137504 original size:33 final size:33
Alignment explanation
Indices: 1137460--1137584 Score: 223
Period size: 33 Copynumber: 3.8 Consensus size: 33
1137450 GCAATGCGAA
*
1137460 TTGCGACTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1137493 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
1137526 TTGCGATTTTCATTTCGCATTGCGATTTTATCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
1137559 TTGCGATTTGCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
1137585 AGCCATTTCC
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 89 1.00
ACGTcount: A:0.14, C:0.19, G:0.21, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:1137603 original size:20 final size:19
Alignment explanation
Indices: 1137569--1137624 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
1137559 TTGCGATTTG
*
1137569 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
1137588 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
1137608 CATTTTCGCGTTGCGAT
1 CA-TTTCGCGTTGCGAT
1137625 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 5 0.15
20 25 0.76
21 3 0.09
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:1140184 original size:19 final size:19
Alignment explanation
Indices: 1140133--1140263 Score: 155
Period size: 19 Copynumber: 7.1 Consensus size: 19
1140123 TCTTTTGGTT
*
1140133 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
1140152 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
1140172 GAAATGACTATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
1140191 AAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
1140210 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
1140227 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
1140243 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
1140262 GA
1 GA
1140264 TTTTGGTTTC
Statistics
Matches: 95, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
14 10 0.11
15 1 0.01
16 2 0.02
17 2 0.02
18 1 0.01
19 62 0.65
20 17 0.18
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:1140242 original size:52 final size:56
Alignment explanation
Indices: 1140134--1140264 Score: 171
Period size: 52 Copynumber: 2.4 Consensus size: 56
1140124 CTTTTGGTTG
* *
1140134 AAATGAAAATCGCAACGAGATAATGAGAATCGCAACGCGAAATGACTATCGCAACGCA
1 AAATGAAAATCGCAACGCGATAATGAAAATCGCAAC-CGAAATGAC-ATCGCAACGCA
* *
1140192 AAATGAAAATCGCAACGCGA-AATGAAAATCGCAA-CGAGA-GA-ATCGCAACGCG
1 AAATGAAAATCGCAACGCGATAATGAAAATCGCAACCGAAATGACATCGCAACGCA
*
1140244 AAATGAAAATCGCAATGCGAT
1 AAATGAAAATCGCAACGCGAT
1140265 TTTGGTTTCG
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
52 29 0.43
54 2 0.03
55 4 0.06
57 13 0.19
58 19 0.28
ACGTcount: A:0.46, C:0.20, G:0.21, T:0.13
Consensus pattern (56 bp):
AAATGAAAATCGCAACGCGATAATGAAAATCGCAACCGAAATGACATCGCAACGCA
Found at i:1140281 original size:19 final size:19
Alignment explanation
Indices: 1140259--1140306 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
1140249 AAAATCGCAA
*
1140259 TGCGATTTTGGTTT-CGCGT
1 TGCGATTTT-ATTTCCGCGT
*
1140278 TGCGATAGTTATTTCCGCGT
1 TGCGAT-TTTATTTCCGCGT
1140298 TGCGATTTT
1 TGCGATTTT
1140307 CATTCTCGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.10, C:0.17, G:0.27, T:0.46
Consensus pattern (19 bp):
TGCGATTTTATTTCCGCGT
Found at i:1140878 original size:20 final size:19
Alignment explanation
Indices: 1140826--1140879 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
1140816 GCTATGTAAA
*
1140826 TCGCATTGCGATAGTAAGAT
1 TCGCATTGCGAT-TTAAGAT
*
1140846 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTAAG-AT
1140866 TCGCATTGCGATTT
1 TCGCATTGCGATTT
1140880 TCCTAATCCG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 3 0.10
20 28 0.90
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (19 bp):
TCGCATTGCGATTTAAGAT
Found at i:1140893 original size:21 final size:20
Alignment explanation
Indices: 1140847--1140896 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
1140837 TAGTAAGATT
* *
1140847 CGCATTGCGATTTACGTATT
1 CGCATTGCGATTTACCTATC
*
1140867 CGCATTGCGATTTTCCTAATC
1 CGCATTGCGATTTACCT-ATC
1140888 CGCATTGCG
1 CGCATTGCG
1140897 GATTATGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.18, C:0.26, G:0.20, T:0.36
Consensus pattern (20 bp):
CGCATTGCGATTTACCTATC
Found at i:1140959 original size:21 final size:21
Alignment explanation
Indices: 1140893--1140959 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
1140883 TAATCCGCAT
* *
1140893 TGCGGATTATGAAAATCGCAA
1 TGCGAATTATGAAAATTGCAA
* * *
1140914 CGCGAA-TACGTAAATTGCAA
1 TGCGAATTATGAAAATTGCAA
*
1140934 TGCGAATTATGAAAATTGCAT
1 TGCGAATTATGAAAATTGCAA
1140955 TGCGA
1 TGCGA
1140960 TAGTCAGTAT
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
20 16 0.44
21 20 0.56
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.25
Consensus pattern (21 bp):
TGCGAATTATGAAAATTGCAA
Found at i:1141017 original size:123 final size:123
Alignment explanation
Indices: 1140818--1141039 Score: 279
Period size: 123 Copynumber: 1.8 Consensus size: 123
1140808 CGAATGGCGC
* ** *
1140818 TATGTAAATCGCATTGCGATAGTAAGATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCC
1 TATGAAAATCGCATTGCGATAGTAAGATTCGCATTGCGATTTACAAATTCGCATTGCGATTTTAC
* * *
1140883 TAATCCGCATTGCGGATTATG-AAAATCGCAACGCGAATACGTAAATTGCAATGCGAAT
66 TAATCCACATTGCGAATT-GGAAAAATCGCAACGCGAATACGTAAATTGCAATGCGAAT
* * * *
1140941 TATGAAAATTGCATTGCGATAGTCAG-TATCGCATTGCGATTTTCCAAATTCGCATTGTGA-TTT
1 TATGAAAATCGCATTGCGATAGTAAGAT-TCGCATTGCGA-TTTACAAATTCGCATTGCGATTTT
* *
1141004 ACTTATTCACATTGCGAATTGGAAAAATCGCAACGC
64 ACTAATCCACATTGCGAATTGGAAAAATCGCAACGC
1141040 AAATTTGGAA
Statistics
Matches: 83, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
122 2 0.02
123 65 0.78
124 16 0.19
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.32
Consensus pattern (123 bp):
TATGAAAATCGCATTGCGATAGTAAGATTCGCATTGCGATTTACAAATTCGCATTGCGATTTTAC
TAATCCACATTGCGAATTGGAAAAATCGCAACGCGAATACGTAAATTGCAATGCGAAT
Found at i:1143543 original size:36 final size:32
Alignment explanation
Indices: 1143496--1143590 Score: 104
Period size: 32 Copynumber: 2.9 Consensus size: 32
1143486 ATAAAACAAT
*
1143496 ATAAGAATCAACTAATTCAATGTACTTCACATTAAC
1 ATAAGAATCAACTAATT--ATCT--TTCACATTAAC
1143532 ATAAGAATCAACTAA-TATCTTTCACATTAAC
1 ATAAGAATCAACTAATTATCTTTCACATTAAC
* *
1143563 ATTAAGAATCAATTAA-TATCCTTCACAT
1 A-TAAGAATCAACTAATTATCTTTCACAT
1143591 CGACAAATAA
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
31 12 0.22
32 24 0.44
33 3 0.05
35 1 0.02
36 15 0.27
ACGTcount: A:0.44, C:0.19, G:0.04, T:0.33
Consensus pattern (32 bp):
ATAAGAATCAACTAATTATCTTTCACATTAAC
Found at i:1143556 original size:31 final size:32
Alignment explanation
Indices: 1143520--1143590 Score: 117
Period size: 32 Copynumber: 2.2 Consensus size: 32
1143510 ATTCAATGTA
1143520 CTTCACATTAACA-TAAGAATCAACTAATATC
1 CTTCACATTAACATTAAGAATCAACTAATATC
* *
1143551 TTTCACATTAACATTAAGAATCAATTAATATC
1 CTTCACATTAACATTAAGAATCAACTAATATC
1143583 CTTCACAT
1 CTTCACAT
1143591 CGACAAATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
31 12 0.33
32 24 0.67
ACGTcount: A:0.42, C:0.21, G:0.03, T:0.34
Consensus pattern (32 bp):
CTTCACATTAACATTAAGAATCAACTAATATC
Found at i:1143817 original size:19 final size:20
Alignment explanation
Indices: 1143754--1143821 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
1143744 TTGAACTTAT
*
1143754 AAAAATTAGAAAA-A-AATAA
1 AAAAAATAGAAAACAGAA-AA
*
1143773 AAATAAATAGAAAACATAAAA
1 AAA-AAATAGAAAACAGAAAA
*
1143794 TAAAAAATA-AAAACAGAAGA
1 -AAAAAATAGAAAACAGAAAA
1143814 AAAAAATA
1 AAAAAATA
1143822 TAGTGTATAC
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
19 11 0.26
20 18 0.43
21 8 0.19
22 5 0.12
ACGTcount: A:0.78, C:0.03, G:0.06, T:0.13
Consensus pattern (20 bp):
AAAAAATAGAAAACAGAAAA
Found at i:1143887 original size:16 final size:16
Alignment explanation
Indices: 1143830--1143888 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
1143820 TATAGTGTAT
*
1143830 ACAGAAAATAAAAAGAAA
1 ACAGAAAAT-TAAA-AAA
* *
1143848 ACATAAAATTAAAAAC
1 ACAGAAAATTAAAAAA
* *
1143864 ATATAAAATTAAAAAA
1 ACAGAAAATTAAAAAA
1143880 ACAGAAAAT
1 ACAGAAAAT
1143889 AGAAAACATG
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
16 23 0.68
17 3 0.09
18 8 0.24
ACGTcount: A:0.73, C:0.07, G:0.05, T:0.15
Consensus pattern (16 bp):
ACAGAAAATTAAAAAA
Found at i:1144654 original size:19 final size:19
Alignment explanation
Indices: 1144627--1144667 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1144617 TTACAAATGA
*
1144627 ATAATACAAAAAA-AATAAC
1 ATAAAACAAAAAACAA-AAC
1144646 ATAAAACAAAAAACAAAAC
1 ATAAAACAAAAAACAAAAC
1144665 ATA
1 ATA
1144668 CTACTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 18 0.90
20 2 0.10
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (19 bp):
ATAAAACAAAAAACAAAAC
Found at i:1144677 original size:26 final size:26
Alignment explanation
Indices: 1144634--1144709 Score: 64
Period size: 26 Copynumber: 2.9 Consensus size: 26
1144624 TGAATAATAC
* *
1144634 AAAAAAAATAACATAAAACAAAAAAC-
1 AAAACAAATAATA-AAAACAAAAAACG
* * * *
1144660 AAAACATACTACTAAAAATAGAAAACG
1 AAAACA-AATAATAAAAACAAAAAACG
*
1144687 AAAAGAAATAATAAAAACAAAAA
1 AAAACAAATAATAAAAACAAAAA
1144710 GTAAATAAAG
Statistics
Matches: 37, Mismatches: 11, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
26 28 0.76
27 9 0.24
ACGTcount: A:0.75, C:0.11, G:0.04, T:0.11
Consensus pattern (26 bp):
AAAACAAATAATAAAAACAAAAAACG
Found at i:1144715 original size:20 final size:21
Alignment explanation
Indices: 1144672--1144717 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
1144662 AACATACTAC
*
1144672 TAAA-AATAGAAAACGAAAAG
1 TAAATAATAGAAAACAAAAAG
1144692 -AAATAATA-AAAACAAAAAG
1 TAAATAATAGAAAACAAAAAG
1144711 TAAATAA
1 TAAATAA
1144718 AGTAAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.74, C:0.04, G:0.09, T:0.13
Consensus pattern (21 bp):
TAAATAATAGAAAACAAAAAG
Found at i:1144788 original size:2 final size:2
Alignment explanation
Indices: 1144783--1144821 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1144773 AAACAAAAAC
1144783 AT AT 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 AT AT A
1144822 AAAAAATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1145311 original size:28 final size:28
Alignment explanation
Indices: 1145280--1145452 Score: 91
Period size: 28 Copynumber: 5.9 Consensus size: 28
1145270 TAGTTTATAA
1145280 ACTATATATAAATATAAACTATATATCT
1 ACTATATATAAATATAAACTATATATCT
* * *
1145308 ACTATGTATAAGTATAAACTATATAGTTT
1 ACTATATATAAATATAAACTATATA-TCT
* * * *
1145337 GCATATAGTTTATATTAATAAACTATATAATTT
1 AC-TATA-TATA-AAT-ATAAACTATAT-ATCT
* * * * *
1145370 A-TACATAGTATATATTTATAATTATACATAGT
1 ACT--ATA-TATAAATATA-AACTATATAT-CT
1145402 A-TATATATAAATATAAACTATATATCT
1 ACTATATATAAATATAAACTATATATCT
* * *
1145429 ACTATGTATAAGTATATAC-ATATA
1 ACTATATATAAATATAAACTATATA
1145453 AATTATAGAA
Statistics
Matches: 111, Mismatches: 23, Indels: 23
0.71 0.15 0.15
Matches are distributed among these distances:
27 7 0.06
28 45 0.41
29 11 0.10
30 6 0.05
31 8 0.07
32 12 0.11
33 21 0.19
34 1 0.01
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.42
Consensus pattern (28 bp):
ACTATATATAAATATAAACTATATATCT
Found at i:1145378 original size:33 final size:33
Alignment explanation
Indices: 1145321--1145390 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
1145311 ATGTATAAGT
* * * *
1145321 ATAAACTATATAGTTTGCATATAGTTTATATTA
1 ATAAACTATATAATTTACACATAGTATATATTA
* *
1145354 ATAAACTATATAATTTATACATAGTATATATTT
1 ATAAACTATATAATTTACACATAGTATATATTA
1145387 ATAA
1 ATAA
1145391 TTATACATAG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (33 bp):
ATAAACTATATAATTTACACATAGTATATATTA
Found at i:1145397 original size:23 final size:24
Alignment explanation
Indices: 1145362--1145407 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 24
1145352 TAATAAACTA
1145362 TATAATTTATACATAGTATATATT
1 TATAATTTATACATAGTATATATT
1145386 TATAA-TTATACATAGTATATAT
1 TATAATTTATACATAGTATATAT
1145408 ATAAATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.48
Consensus pattern (24 bp):
TATAATTTATACATAGTATATATT
Found at i:1145425 original size:21 final size:20
Alignment explanation
Indices: 1145378--1145465 Score: 59
Period size: 21 Copynumber: 4.2 Consensus size: 20
1145368 TTATACATAG
* * *
1145378 TATATATTTATAATTATACA
1 TATATATATATAAATATAAA
1145398 TAGTATATATATAAATATAAA
1 TA-TATATATATAAATATAAA
* ** *
1145419 CTATATATCTACTATGTATAAG
1 -TATATATATA-TAAATATAAA
*
1145441 TATATACATATAAATTATAGAA
1 TATATATATATAAA-TATA-AA
1145463 TAT
1 TAT
1145466 GAGGAGTCGA
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
20 4 0.08
21 34 0.67
22 13 0.25
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.42
Consensus pattern (20 bp):
TATATATATATAAATATAAA
Found at i:1146192 original size:8 final size:8
Alignment explanation
Indices: 1146174--1146997 Score: 174
Period size: 9 Copynumber: 102.5 Consensus size: 8
1146164 AATGTATACT
1146174 TATAT-TA
1 TATATATA
*
1146181 TATATGTA
1 TATATATA
1146189 TATATATA
1 TATATATA
1146197 TATATATA
1 TATATATA
1146205 TATATATA
1 TATATATA
*
1146213 CTTTATACT-
1 -TATATA-TA
1146222 TATATAT-
1 TATATATA
1146229 TATATAT-
1 TATATATA
*
1146236 TATGTACT-
1 TATATA-TA
*
1146244 TATAAATA
1 TATATATA
*
1146252 TA-ATGTA
1 TATATATA
1146259 TACT-TATA
1 TA-TATATA
1146267 T-TATATA
1 TATATATA
1146274 TATATATA
1 TATATATA
1146282 CT-TATAT-
1 -TATATATA
1146289 TATATATA
1 TATATATA
1146297 TATAT-TA
1 TATATATA
*
1146304 TATAAATA
1 TATATATA
*
1146312 TAAAT-TA
1 TATATATA
1146319 TAT-TATA
1 TATATATA
1146326 T-TATAT-
1 TATATATA
1146332 TATATA-A
1 TATATATA
*
1146339 TATATAAA
1 TATATATA
1146347 TATATATA
1 TATATATA
* *
1146355 TCTACATA
1 TATATATA
*
1146363 TAAATATA
1 TATATATA
*
1146371 AACTATAGTA
1 TA-TATA-TA
*
1146381 TATAGT-TT
1 TATA-TATA
*
1146389 TATATATC
1 TATATATA
*
1146397 T-TATATG
1 TATATATA
*
1146404 TAAACTATA
1 TATA-TATA
1146413 TAGTATATA
1 TA-TATATA
1146422 TA-ATATA
1 TATATATA
1146429 TATATATA
1 TATATATA
* *
1146437 TAGTTTACA
1 TA-TATATA
1146446 TATAGTATA
1 TATA-TATA
* *
1146455 TATGGTTTA
1 TAT-ATATA
*
1146464 TATATAGTT
1 TATATA-TA
1146473 TATAT-TA
1 TATATATA
*
1146480 -ATAAACTA
1 TATATA-TA
*
1146488 TATA-ATT
1 TATATATA
1146495 TATA-AT-
1 TATATATA
1146501 TATATATA
1 TATATATA
* *
1146509 GCATATAAA
1 -TATATATA
*
1146518 TATAAACTA
1 TATATA-TA
* *
1146527 TACAGTTTA
1 TATA-TATA
1146536 TATATAGT-
1 TATATA-TA
1146544 TCATATATA
1 T-ATATATA
*
1146553 GTTTATATA
1 -TATATATA
*
1146562 GTTTATATA
1 -TATATATA
*
1146571 TA-ATTTA
1 TATATATA
*
1146578 TATAGTTTA
1 TATA-TATA
*
1146587 T-TAGTTTA
1 TATA-TATA
1146595 TATATATA
1 TATATATA
* *
1146603 GT-TCGTATG
1 -TAT-ATATA
*
1146612 TAAACTATA
1 TATA-TATA
*
1146621 TA-ATTTA
1 TATATATA
* *
1146628 TTTAGTTTA
1 TATA-TATA
1146637 TATATATA
1 TATATATA
*
1146645 GTTTATATA
1 -TATATATA
1146654 TAGTATATA
1 TA-TATATA
* *
1146663 TGGTTTATA
1 T-ATATATA
1146672 TATA-AT-
1 TATATATA
1146678 TATATAT-
1 TATATATA
*
1146685 TA-ATATG
1 TATATATA
*
1146692 TATAAACTA
1 TATATA-TA
*
1146701 TATAGTTTA
1 TATA-TATA
*
1146710 TATATAAA
1 TATATATA
1146718 CTATATATA
1 -TATATATA
1146727 GT-TATATA
1 -TATATATA
* *
1146735 AAT-TAAA
1 TATATATA
** * *
1146742 CCTAAACCA
1 TATATA-TA
1146751 TATATACTA
1 TATATA-TA
*
1146760 TATGTATA
1 TATATATA
*
1146768 AACTATATA
1 TA-TATATA
*
1146777 TATAGTTTA
1 TATA-TATA
*
1146786 TACATAGTA
1 TATATA-TA
*
1146795 GTATATAAA
1 -TATATATA
* *
1146804 CATAAACTA
1 TATATA-TA
*
1146813 TATA-ATT
1 TATATATA
*
1146820 TATACATA
1 TATATATA
*
1146828 GTAAATATA
1 -TATATATA
*
1146837 -ATTTATA
1 TATATATA
1146844 -AT-TATA
1 TATATATA
* *
1146850 AATAGTATT
1 TATA-TATA
* *
1146859 TTTATAAA
1 TATATATA
*
1146867 TATAAACTA
1 TATATA-TA
*
1146876 TATAGTTTA
1 TATA-TATA
* *
1146885 TATAGTTTG
1 TATA-TATA
*
1146894 TATATAGTC
1 TATATA-TA
1146903 TATAT-TA
1 TATATATA
*
1146910 -ATAAACTA
1 TATATA-TA
*
1146918 TATA-ATT
1 TATATATA
*
1146925 TATACATA
1 TATATATA
1146933 -AGTATATA
1 TA-TATATA
*
1146941 -ATTTATA
1 TATATATA
*
1146948 TTTATATA
1 TATATATA
1146956 TATATATA
1 TATATATA
1146964 TATATATA
1 TATATATA
1146972 TATATATA
1 TATATATA
*
1146980 AAT-TATA
1 TATATATA
1146987 TAT-TATA
1 TATATATA
1146994 TATA
1 TATA
1146998 CTTATGTATA
Statistics
Matches: 604, Mismatches: 130, Indels: 165
0.67 0.14 0.18
Matches are distributed among these distances:
6 27 0.04
7 145 0.24
8 204 0.34
9 216 0.36
10 12 0.02
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (8 bp):
TATATATA
Found at i:1146212 original size:73 final size:71
Alignment explanation
Indices: 1146133--1146355 Score: 210
Period size: 69 Copynumber: 3.1 Consensus size: 71
1146123 AGTTCTACAC
*
1146133 ATATATACTTTATATATGTACTTATAAGTATAATGTATACTTATATTATATATGTATATATATAT
1 ATATATACTTTATATATATA-TTATAA-TATAATGTATACTTATATTATATATGTATATATATAT
1146198 ATATATAT
64 ATATATAT
* *
1146206 ATATATACTTTATACTTATATATTAT-ATATTATG--TACTTATA-AATATAATGTATACT-TAT
1 ATATATACTTTATA--TATATATTATAATATAATGTATACTTATATTATAT-ATGTATA-TATAT
1146266 AT-TATATAT
62 ATATATATAT
* * * *
1146275 ATATATACTTATATTATATATATATATTATATAA-ATATAAATTATATTATAT-TATATTATATA
1 ATATATACTT-TA-TATATATAT-TATAATATAATGTAT-ACTTATATTATATATGTA-TATAT-
*
1146338 ATATATAAATAT
60 ATATATATATAT
1146350 ATATAT
1 ATATAT
1146356 CTACATATAA
Statistics
Matches: 125, Mismatches: 9, Indels: 30
0.76 0.05 0.18
Matches are distributed among these distances:
69 28 0.22
70 25 0.20
71 8 0.06
72 11 0.09
73 24 0.19
74 12 0.10
75 17 0.14
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.50
Consensus pattern (71 bp):
ATATATACTTTATATATATATTATAATATAATGTATACTTATATTATATATGTATATATATATAT
ATATAT
Found at i:1146225 original size:15 final size:13
Alignment explanation
Indices: 1146168--1146337 Score: 110
Period size: 13 Copynumber: 12.3 Consensus size: 13
1146158 AAGTATAATG
*
1146168 TATACTTATATTA
1 TATATTTATATTA
*
1146181 TATATGTATATATA
1 TATATTTATAT-TA
*
1146195 TATATATATATATA
1 TATATTTATAT-TA
1146209 TATACTTTATACTTA
1 TATA-TTTATA-TTA
1146224 TATATTATATATTA
1 TATATT-TATATTA
* * *
1146238 TGTACTTATA-AA
1 TATATTTATATTA
*
1146250 TATAATGTATACTTA
1 TAT-ATTTATA-TTA
*
1146265 TAT-TATATATATA
1 TATATTTATAT-TA
*
1146278 TATACTTATATTA
1 TATATTTATATTA
*
1146291 TATATATATATTA
1 TATATTTATATTA
* *
1146304 TATAAATATAAATTA
1 TAT--ATTTATATTA
1146319 TATTATATTATATTA
1 TA-TAT-TTATATTA
1146334 TATA
1 TATA
1146338 ATATATAAAT
Statistics
Matches: 125, Mismatches: 19, Indels: 25
0.74 0.11 0.15
Matches are distributed among these distances:
12 4 0.03
13 44 0.35
14 37 0.30
15 38 0.30
16 2 0.02
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (13 bp):
TATATTTATATTA
Found at i:1146288 original size:89 final size:89
Alignment explanation
Indices: 1146134--1146301 Score: 270
Period size: 89 Copynumber: 1.9 Consensus size: 89
1146124 GTTCTACACA
* *
1146134 TATATACTTTATATATGTACTTATAAGTATAATGTATACTTATATTATATATGTATATATATATA
1 TATATACTTTATATATGTACTTATAAATATAATGTATACTTATATTATATATATATATATATATA
1146199 -TATATATATATATACTTTATACT
66 TTATATATATATATACTTTATACT
1146222 TATATA-TTATATATTATGTACTTATAAATATAATGTATACTTATATTATATATATATATACT-T
1 TATATACTT-TATA-TATGTACTTATAAATATAATGTATACTTATATTATATATATATATA-TAT
1146285 ATATTATATATATATAT
63 ATATTATATATATATAT
1146302 TATATAAATA
Statistics
Matches: 74, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
87 2 0.03
88 10 0.14
89 48 0.65
90 14 0.19
ACGTcount: A:0.41, C:0.05, G:0.04, T:0.51
Consensus pattern (89 bp):
TATATACTTTATATATGTACTTATAAATATAATGTATACTTATATTATATATATATATATATATA
TTATATATATATATACTTTATACT
Found at i:1146341 original size:15 final size:15
Alignment explanation
Indices: 1146173--1146341 Score: 88
Period size: 15 Copynumber: 11.1 Consensus size: 15
1146163 TAATGTATAC
*
1146173 TTATATTATATATGTA
1 TTATATTATATA-ATA
1146189 TATATATATATATATATA
1 T-TATAT-TATATA-ATA
*
1146207 TATATACTT-TATACT-
1 T-TATA-TTATATAATA
*
1146222 TATATATTATATATTA
1 T-TATATTATATAATA
*
1146238 TGTA-CTTATA-AATA
1 T-TATATTATATAATA
*
1146252 -TA-ATGTATACTTATA
1 TTATAT-TATA-TAATA
1146267 TTATA-TATATATATA
1 TTATATTATATA-ATA
1146282 CTTATATTATAT-ATA
1 -TTATATTATATAATA
1146297 -TATATTATATAA-A
1 TTATATTATATAATA
* *
1146310 TATAAATTATATTATA
1 T-TATATTATATAATA
1146326 TTATATTATATAATA
1 TTATATTATATAATA
1146341 T
1 T
1146342 ATAAATATAT
Statistics
Matches: 123, Mismatches: 13, Indels: 35
0.72 0.08 0.20
Matches are distributed among these distances:
12 3 0.02
13 15 0.12
14 7 0.06
15 52 0.42
16 14 0.11
17 15 0.12
18 16 0.13
19 1 0.01
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (15 bp):
TTATATTATATAATA
Found at i:1146341 original size:89 final size:90
Alignment explanation
Indices: 1146143--1146342 Score: 245
Period size: 89 Copynumber: 2.3 Consensus size: 90
1146133 ATATATACTT
* * *
1146143 TATA-TATGTACTTATA-AGTATAATGTATACTTATATTATATATGTATATATATATATATATAT
1 TATATTATGTAATTATATAATATAATGTATACTTATATTATATATATATATATATATATATATAT
** *
1146206 ATATATACTTTATACTTATATATTA
66 ATATATACTTTATAAATATAAATTA
*
1146231 TATATTATGTACTTATA-AATATAATGTATACTTATATTATATATATATATACT-TATAT-TATA
1 TATATTATGTAATTATATAATATAATGTATACTTATATTATATATATATATA-TATATATATATA
1146293 TATATATA-TTATATAAATATAAATTA
65 TATATATACTT-TATAAATATAAATTA
1146319 TAT-TATAT-TATATTATATAATATA
1 TATAT-TATGTA-ATTATATAATATA
1146343 TAAATATATA
Statistics
Matches: 100, Mismatches: 6, Indels: 11
0.85 0.05 0.09
Matches are distributed among these distances:
87 5 0.05
88 39 0.39
89 55 0.55
90 1 0.01
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.50
Consensus pattern (90 bp):
TATATTATGTAATTATATAATATAATGTATACTTATATTATATATATATATATATATATATATAT
ATATATACTTTATAAATATAAATTA
Found at i:1146350 original size:15 final size:15
Alignment explanation
Indices: 1146268--1146438 Score: 64
Period size: 17 Copynumber: 10.9 Consensus size: 15
1146258 ATACTTATAT
**
1146268 TATATATATATATACT
1 TATATA-ATATATAAA
*
1146284 TATATTATATATATATAT
1 TATA-TA-ATATATA-AA
1146302 TATATAA-ATATAAA
1 TATATAATATATAAA
* *
1146316 T-TATATTATATTATAT
1 TATATAATATA-TA-AA
1146332 TATATAATATATAAA
1 TATATAATATATAAA
* *
1146347 TATAT-ATATCTACA
1 TATATAATATATAAA
*
1146361 TATA-AATATA-AAC
1 TATATAATATATAAA
* *
1146374 TATAGTATATAGTTTTATA
1 TATA-TA-ATA--TATAAA
* * *
1146393 TATCTTATATGTAAA
1 TATATAATATATAAA
*
1146408 CTATATAGTATATATAA
1 -TATATAATATATA-AA
1146425 TATATATATATATA
1 TATATA-ATATATA
1146439 GTTTACATAT
Statistics
Matches: 116, Mismatches: 23, Indels: 31
0.68 0.14 0.18
Matches are distributed among these distances:
13 9 0.08
14 20 0.17
15 18 0.16
16 27 0.23
17 31 0.27
18 7 0.06
19 4 0.03
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (15 bp):
TATATAATATATAAA
Found at i:1146437 original size:35 final size:35
Alignment explanation
Indices: 1146174--1146538 Score: 165
Period size: 35 Copynumber: 10.3 Consensus size: 35
1146164 AATGTATACT
* *
1146174 TATATTATATATGTATATATATATATATATATA-TA
1 TATAGTATATAT-TATATATATATATATATAAACTA
* * **
1146209 TATACTTTATACTTATATAT-TATATATTATGTACT-
1 TATAGTATATA-TTATATATATATATA-TATAAACTA
* *
1146244 TATA-AATATAATGTATACT-TATAT-TATATATA-TA
1 TATAGTATAT-AT-TATA-TATATATATATATAAACTA
*
1146278 TATACT-TATATTATATATATATATTATATAAA-TA
1 TATAGTATATATTATATATATATA-TATATAAACTA
*
1146312 TA-AAT-TATATTATAT-TATAT-TATAT-AA-TA
1 TATAGTATATATTATATATATATATATATAAACTA
* * * *
1146341 TATA-AATATATATATCTACATATAAATATAAAC--
1 TATAGTATATAT-TATATATATATATATATAAACTA
* * *
1146374 TATAGTATATAGTTTTATATATCTTATATGTAAACTA
1 TATAGTATATA-TTATATATAT-ATATATATAAACTA
* **
1146411 TATAGTATATATAATATATATATATATAGTTTAC-A
1 TATAGTATATATTATATATATATATATA-TAAACTA
*
1146446 TATAGTATATATGGTTTATATATAGTTTATATTAATAAACTA
1 TATAGTATATA----TTATATATA-TATATA-T-ATAAACTA
* * *
1146488 TATAATTTATAATTATATATAGCATATAAATATAAACTA
1 TATAGTATAT-ATTATATAT---ATATATATATAAACTA
* *
1146527 TACAGTTTATAT
1 TATAGTATATAT
1146539 ATAGTTCATA
Statistics
Matches: 257, Mismatches: 36, Indels: 71
0.71 0.10 0.20
Matches are distributed among these distances:
29 6 0.02
30 11 0.04
31 5 0.02
32 18 0.07
33 23 0.09
34 46 0.18
35 60 0.23
36 17 0.07
37 11 0.04
38 2 0.01
39 32 0.12
40 6 0.02
41 8 0.03
42 11 0.04
43 1 0.00
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (35 bp):
TATAGTATATATTATATATATATATATATAAACTA
Found at i:1146465 original size:11 final size:11
Alignment explanation
Indices: 1146409--1146734 Score: 97
Period size: 11 Copynumber: 30.4 Consensus size: 11
1146399 ATATGTAAAC
1146409 TATATAGTATATA
1 TATATAGT-T-TA
*
1146422 TAATATA-TATA
1 T-ATATAGTTTA
1146433 TATATAGTTTA
1 TATATAGTTTA
*
1146444 CATATAG--TA
1 TATATAGTTTA
*
1146453 TATATGGTTTA
1 TATATAGTTTA
1146464 TATATAGTTTA
1 TATATAGTTTA
* **
1146475 TAT-TAATAAA
1 TATATAGTTTA
*
1146485 CTATATA-ATT-
1 -TATATAGTTTA
1146495 TATA-A--TTA
1 TATATAGTTTA
**
1146503 TATATAGCATA
1 TATATAGTTTA
* **
1146514 TAAATA-TAAA
1 TATATAGTTTA
*
1146524 CTATACAGTTTA
1 -TATATAGTTTA
*
1146536 TATATAGTTCA
1 TATATAGTTTA
1146547 TATATAG-TT-
1 TATATAGTTTA
1146556 TATATAGTTTA
1 TATATAGTTTA
*
1146567 TATATA-ATT-
1 TATATAGTTTA
1146576 TATATAG-TT-
1 TATATAGTTTA
1146585 TAT-TAGTTTATA
1 TATATAG-TT-TA
**
1146597 TATATAGTTCG
1 TATATAGTTTA
* ***
1146608 TATGTAAACTA
1 TATATAGTTTA
1146619 TATA-A-TTTA
1 TATATAGTTTA
1146628 T-T-TAGTTTATA
1 TATATAG-TT-TA
1146639 TATATAGTTTA
1 TATATAGTTTA
1146650 TATATAG--TA
1 TATATAGTTTA
*
1146659 TATATGGTTTA
1 TATATAGTTTA
*
1146670 TATATAATTATA
1 TATATAGTT-TA
*
1146682 TATTAATATGTATAAA
1 TA-T-ATA-GT-T-TA
1146698 CTATATAGTTTA
1 -TATATAGTTTA
***
1146710 TATATAAACTA
1 TATATAGTTTA
1146721 TATATAG-TTA
1 TATATAGTTTA
1146731 TATA
1 TATA
1146735 AATTAAACCT
Statistics
Matches: 233, Mismatches: 46, Indels: 71
0.67 0.13 0.20
Matches are distributed among these distances:
7 2 0.01
8 10 0.04
9 41 0.18
10 26 0.11
11 107 0.46
12 17 0.07
13 10 0.04
14 10 0.04
15 4 0.02
16 4 0.02
17 2 0.01
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.48
Consensus pattern (11 bp):
TATATAGTTTA
Found at i:1146715 original size:13 final size:13
Alignment explanation
Indices: 1146556--1146655 Score: 62
Period size: 13 Copynumber: 7.3 Consensus size: 13
1146546 ATATATAGTT
1146556 TATATAGTTTATA
1 TATATAGTTTATA
1146569 TATA-A-TTTATA
1 TATATAGTTTATA
1146580 TAGTTTATTAGTTTATA
1 TA---TA-TAGTTTATA
*
1146597 TATATAGTTCGTATG
1 TATATAGTT--TATA
* * *
1146612 TAAACTA-TATAATT
1 TATA-TAGT-TTATA
*
1146626 TATTTAGTTTATA
1 TATATAGTTTATA
1146639 TATATAGTTTATA
1 TATATAGTTTATA
1146652 TATA
1 TATA
1146656 GTATATATGG
Statistics
Matches: 67, Mismatches: 9, Indels: 22
0.68 0.09 0.22
Matches are distributed among these distances:
11 8 0.12
12 1 0.01
13 30 0.45
14 9 0.13
15 7 0.10
16 4 0.06
17 8 0.12
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.53
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:1146975 original size:28 final size:28
Alignment explanation
Indices: 1146935--1147016 Score: 96
Period size: 28 Copynumber: 3.0 Consensus size: 28
1146925 TATACATAAG
* *
1146935 TATATA-ATTTATATTTATA-TATATAT
1 TATATATATTTATATATAAATTATATAT
*
1146961 ATATATATATATATATATAAATTATATAT
1 -TATATATATTTATATATAAATTATATAT
* *
1146990 TATATATACTTATGTATAAATTATATA
1 TATATATATTTATATATAAATTATATA
1147017 GTTTATTAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 6 0.13
28 34 0.72
29 7 0.15
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (28 bp):
TATATATATTTATATATAAATTATATAT
Found at i:1147007 original size:10 final size:9
Alignment explanation
Indices: 1146935--1147007 Score: 63
Period size: 8 Copynumber: 8.9 Consensus size: 9
1146925 TATACATAAG
1146935 TATATA-AT
1 TATATATAT
1146943 T-TATAT-T
1 TATATATAT
1146950 TATATATA-
1 TATATATAT
1146958 TATATATA-
1 TATATATAT
1146966 TATATATA-
1 TATATATAT
*
1146974 TATATA-AA
1 TATATATAT
1146982 T-TATATAT
1 TATATATAT
1146990 TATATATACT
1 TATATATA-T
*
1147000 TATGTATA
1 TATATATA
1147008 AATTATATAG
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
7 11 0.20
8 31 0.55
9 6 0.11
10 8 0.14
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (9 bp):
TATATATAT
Found at i:1147016 original size:2 final size:2
Alignment explanation
Indices: 1146174--1146997 Score: 174
Period size: 2 Copynumber: 410.0 Consensus size: 2
1146164 AATGTATACT
* *
1146174 TA TA T- TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA CTT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* *
1146216 TA TA CT- TA TA TA T- TA TA TA T- TA TG TA CT- TA TA AA TA TA -A
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
*
1146255 TG TA TA CT- TA TA T- TA TA TA TA TA TA TA CT- TA TA T- TA TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* *
1146295 TA TA TA T- TA TA TA AA TA TA AA T- TA TA T- TA TA T- TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
1146332 TA TA TA -A TA TA TA AA TA TA TA TA TC TA CA TA TA AA TA TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
1146373 CTA TA GTA TA TA GT- TT TA TA TA TC T- TA TA TG TA AA CTA TA TA
1 -TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* *
1146415 GTA TA TA TA -A TA TA TA TA TA TA TA GTT TA CA TA TA GTA TA TA
1 -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA
* * * * *
1146457 TGG TT TA TA TA TA GTT TA TA T- TA -A TA AA CTA TA TA -A TT TA
1 T-A TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
* * * * *
1146497 TA -A T- TA TA TA TA GCA TA TA AA TA TA AA CTA TA CA GTT TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA -TA TA TA
* * *
1146538 TA TA GT- TCA TA TA TA GTT TA TA TA GTT TA TA TA TA -A TT TA TA
1 TA TA -TA T-A TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * * * *
1146580 TA GTT TA T- TA GTT TA TA TA TA TA GT- TCG TA TG TA AA CTA TA TA
1 TA -TA TA TA TA -TA TA TA TA TA TA -TA T-A TA TA TA TA -TA TA TA
* * * * *
1146623 -A TT TA TT TA GTT TA TA TA TA TA GTT TA TA TA TA GTA TA TA TGG
1 TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA T-A
* * *
1146666 TT TA TA TA TA -A T- TA TA TA T- TA -A TA TG TA TA AA CTA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * * * **
1146705 GTT TA TA TA TA AA CTA TA TA TA GT- TA TA TA AA T- TA AA CC TA
1 -TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
* * * * * *
1146746 AA CCA TA TA TA CTA TA TG TA TA AA CTA TA TA TA TA GTT TA TA CA
1 TA -TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA
* * * * * *
1146790 TA GTA GTA TA TA AA CA TA AA CTA TA TA -A TT TA TA CA TA GTA AA
1 TA -TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA
* * * * * *
1146833 TA TA -A TT TA TA -A T- TA TA AA TA GTA TT TT TA TA AA TA TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * * * *
1146873 CTA TA TA GTT TA TA TA GTT TG TA TA TA GTC TA TA T- TA -A TA AA
1 -TA TA TA -TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * * *
1146915 CTA TA TA -A TT TA TA CA TA -A GTA TA TA -A TT TA TA TT TA TA TA
1 -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
*
1146956 TA TA TA TA TA TA TA TA TA TA TA TA AA T- TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1146996 TA
1 TA
1146998 CTTATGTATA
Statistics
Matches: 582, Mismatches: 145, Indels: 190
0.63 0.16 0.21
Matches are distributed among these distances:
1 46 0.08
2 477 0.82
3 59 0.10
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1148423 original size:56 final size:56
Alignment explanation
Indices: 1148370--1148488 Score: 145
Period size: 57 Copynumber: 2.1 Consensus size: 56
1148360 TTCATGCATC
*
1148370 GATGCA-CATACCATGCATCGATGAACTA-AG-TATTTTATGAAAACATCGAATGCATTT
1 GATGCACCA-ACCATGCATCGATGAACTATAGTTA-TTT-TG-AAACATCGAATGCACTT
* * *
1148427 GATGCACCAGCCATGCATCGATGCACTATGGTTATTTTGAAACATCGAATGCACTT
1 GATGCACCAACCATGCATCGATGAACTATAGTTATTTTGAAACATCGAATGCACTT
1148483 GATGCA
1 GATGCA
1148489 TCGATGCACT
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
56 22 0.40
57 25 0.45
58 6 0.11
59 2 0.04
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (56 bp):
GATGCACCAACCATGCATCGATGAACTATAGTTATTTTGAAACATCGAATGCACTT
Found at i:1148441 original size:57 final size:56
Alignment explanation
Indices: 1148380--1148488 Score: 150
Period size: 56 Copynumber: 1.9 Consensus size: 56
1148370 GATGCACATA
*
1148380 CCATGCATCGATGAACTA-AG-TATTTTATGAAAACATCGAATGCATTTGATGCACCAG
1 CCATGCATCGATGAACTATAGTTA-TTT-TG-AAACATCGAATGCACTTGATGCACCAG
* *
1148437 CCATGCATCGATGCACTATGGTTATTTTGAAACATCGAATGCACTTGATGCA
1 CCATGCATCGATGAACTATAGTTATTTTGAAACATCGAATGCACTTGATGCA
1148489 TCGATGCACT
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
56 22 0.47
57 19 0.40
58 4 0.09
59 2 0.04
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.29
Consensus pattern (56 bp):
CCATGCATCGATGAACTATAGTTATTTTGAAACATCGAATGCACTTGATGCACCAG
Found at i:1148497 original size:17 final size:19
Alignment explanation
Indices: 1148469--1148517 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
1148459 TATTTTGAAA
1148469 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
1148487 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
1148506 CACCGATGCACT
1 CATCGATGCACT
1148518 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:1154288 original size:21 final size:21
Alignment explanation
Indices: 1154245--1154288 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1154235 ATTCCTCCAA
*
1154245 AACATTTTAATAGGAATATTT
1 AACATTTTAATAGGAATACTT
*
1154266 AACATTTTATATAGTAAT-CTT
1 AACATTTTA-ATAGGAATACTT
1154287 AA
1 AA
1154289 AAGGTATTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (21 bp):
AACATTTTAATAGGAATACTT
Found at i:1158233 original size:2 final size:2
Alignment explanation
Indices: 1158226--1158255 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1158216 TGCTATTTTA
1158226 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1158256 CGTTATCTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.