Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 89 of 344
Found at i:29669477 original size:26 final size:25
Alignment explanation
Indices: 29669384--29669531 Score: 145
Period size: 26 Copynumber: 5.6 Consensus size: 25
29669374 GTTAAGACCT
29669384 CAGTTTGTAAAATTACTGAAATACCC
1 CAGTTTGTAAAATTACTGAAATA-CC
*
29669410 CTGATTTGTAAAATTACTGAAATACCCC
1 CAG-TTTGTAAAATTACTGAAATA--CC
* *
29669438 CAATTTGTAAAATTACTAAAATACC
1 CAGTTTGTAAAATTACTGAAATACC
*
29669463 TCAGTTTGTAAAATTACCGAAATACC
1 -CAGTTTGTAAAATTACTGAAATACC
* *
29669489 CCGATTTGTAAAATTA-TCAAAATACC
1 CAG-TTTGTAAAATTACT-GAAATACC
* *
29669515 CTGTAATGTAAAATTAC
1 CAGT-TTGTAAAATTAC
29669532 CGTAATGCCC
Statistics
Matches: 103, Mismatches: 12, Indels: 13
0.80 0.09 0.10
Matches are distributed among these distances:
25 5 0.05
26 55 0.53
27 39 0.38
28 4 0.04
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (25 bp):
CAGTTTGTAAAATTACTGAAATACC
Found at i:29669525 original size:52 final size:53
Alignment explanation
Indices: 29669387--29669533 Score: 174
Period size: 52 Copynumber: 2.8 Consensus size: 53
29669377 AAGACCTCAG
* * * * *
29669387 TTTGTAAAATTACTGAAATACCCCTGATTTGTAAAATTACTGAAATACCCCCAA
1 TTTGTAAAATTACTAAAATACCTCAG-TATGTAAAATTACCGAAATACCCCCAA
* *
29669441 TTTGTAAAATTACTAAAATACCTCAGTTTGTAAAATTACCGAAATA-CCCCGA
1 TTTGTAAAATTACTAAAATACCTCAGTATGTAAAATTACCGAAATACCCCCAA
*
29669493 TTTGTAAAATTA-TCAAAATACC-CTGTAATGTAAAATTACCG
1 TTTGTAAAATTACT-AAAATACCTCAGT-ATGTAAAATTACCG
29669534 TAATGCCCTT
Statistics
Matches: 84, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
51 4 0.05
52 38 0.45
53 19 0.23
54 23 0.27
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (53 bp):
TTTGTAAAATTACTAAAATACCTCAGTATGTAAAATTACCGAAATACCCCCAA
Found at i:29669560 original size:27 final size:27
Alignment explanation
Indices: 29669513--29669773 Score: 326
Period size: 27 Copynumber: 9.7 Consensus size: 27
29669503 TATCAAAATA
** *
29669513 CCCTGTAATGTAAAATTACCGTAATGC
1 CCCTGTAGGGTAAAATGACCGTAATGC
* * *
29669540 CCTTGTAGTGTAGAATGACCGTAATGC
1 CCCTGTAGGGTAAAATGACCGTAATGC
*
29669567 CCCTGTAGGGTAAAATGATCGTAATGC
1 CCCTGTAGGGTAAAATGACCGTAATGC
*
29669594 CCCTGTAGGGTAAAATGACTGTAATGC
1 CCCTGTAGGGTAAAATGACCGTAATGC
* *
29669621 CCCTGTAGGGTAAAATGACCATACTGC
1 CCCTGTAGGGTAAAATGACCGTAATGC
**
29669648 CCCTGTA-GGTAAAATGACTATAATGC
1 CCCTGTAGGGTAAAATGACCGTAATGC
* * * * *
29669674 CCTTATAGGGTAAAATGATCATAATGT
1 CCCTGTAGGGTAAAATGACCGTAATGC
* * *
29669701 CCCTGTAAGGTAAAATGACTGTAATGT
1 CCCTGTAGGGTAAAATGACCGTAATGC
*
29669728 CCCTGTAGAGTAAAATGACCGTAATGC
1 CCCTGTAGGGTAAAATGACCGTAATGC
29669755 CCCTGTAGGGTAAAATGAC
1 CCCTGTAGGGTAAAATGAC
29669774 GATTATGCCC
Statistics
Matches: 202, Mismatches: 31, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 22 0.11
27 180 0.89
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (27 bp):
CCCTGTAGGGTAAAATGACCGTAATGC
Found at i:29670031 original size:26 final size:27
Alignment explanation
Indices: 29669980--29670038 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 27
29669970 CTGGTGGCTT
*
29669980 TGCTGCATTTACTATTTCTGGCAGCTA
1 TGCTGCATTTACTATTACTGGCAGCTA
*
29670007 TGCTGCA-TTA-TGATTACTGGCAGCTT
1 TGCTGCATTTACT-ATTACTGGCAGCTA
29670033 TGCTGC
1 TGCTGC
29670039 GATATTGGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 1 0.03
26 21 0.72
27 7 0.24
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (27 bp):
TGCTGCATTTACTATTACTGGCAGCTA
Found at i:29675740 original size:46 final size:46
Alignment explanation
Indices: 29675687--29675858 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 46
29675677 TGGGCATCCT
* *
29675687 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
* * * *
29675733 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCCG
* *
29675780 AACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
* * *
29675826 AGCTCGTTGAGTTGAGTCCAAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
29675859 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 59 0.57
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
Found at i:29675838 original size:93 final size:93
Alignment explanation
Indices: 29675679--29675851 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
29675669 AGGATATTTG
* * * *
29675679 GGCATCCTAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCGAACTCGTTGAG
*
29675744 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCAAGTTCGTGAGATGTAACTA
* *
29675772 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGTCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCGAACTCGTTGAG
29675837 TTGAGTCCAAGTTCG
66 TTGAGTCCAAGTTCG
29675852 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCGAACTCGTTGAG
TTGAGTCCAAGTTCGTGAGATGTAACTA
Found at i:29676847 original size:37 final size:37
Alignment explanation
Indices: 29676788--29676896 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
29676778 AGCTCAGACG
* *
29676788 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
29676825 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
29676862 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
29676897 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:29677181 original size:50 final size:50
Alignment explanation
Indices: 29677046--29677192 Score: 235
Period size: 50 Copynumber: 3.0 Consensus size: 50
29677036 CATCGCCTAC
* * *
29677046 ATATTTCACACT-AGCCATTCAGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACATTGA-CCATTCGGCTTTACCACATATGCATATCTCATATAT
29677096 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
1 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
*
29677146 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATGT-TCATAT
1 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATAT
29677193 TCACCACATT
Statistics
Matches: 92, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
49 6 0.07
50 85 0.92
51 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.37
Consensus pattern (50 bp):
ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
Found at i:29677242 original size:47 final size:47
Alignment explanation
Indices: 29677151--29677342 Score: 271
Period size: 47 Copynumber: 4.1 Consensus size: 47
29677141 TATATATATT
* * * *
29677151 TCACATTGACCATTCGGCTTTA-C-CACATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* *
29677196 CCACATTGGCCATTCAGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* * *
29677243 TCGCATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTTA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* *
29677290 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
29677337 TCACAT
1 TCACAT
29677343 AAAATCCTAA
Statistics
Matches: 131, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 18 0.14
46 1 0.01
47 112 0.85
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
Found at i:29681883 original size:15 final size:15
Alignment explanation
Indices: 29681845--29681888 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
29681835 CATAGTATCG
* *
29681845 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTC
29681860 TAT-TCTGGATTTCTC
1 TATCT-TGGATTTCTC
29681875 TATCTTGGATTTCT
1 TATCTTGGATTTCT
29681889 TTATTCGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:29684342 original size:46 final size:46
Alignment explanation
Indices: 29684289--29684464 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
29684279 TATTTGGGCA
*
29684289 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
29684335 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
29684382 TCCGAACTCGTTGAGTTGAGTACGAGTTCA-TTCATGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTT-ATGGATGCAAACG
* * * **
29684428 CCCTAGCTCGTTGAGTTGAGTCCGAGTTTGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
29684465 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 58 0.55
47 31 0.29
48 2 0.02
50 6 0.06
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:29684444 original size:93 final size:93
Alignment explanation
Indices: 29684285--29684455 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
29684275 AGGATATTTG
* * *
29684285 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTACGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
29684350 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
29684378 GGCATCCGAACTCGTTGAGTTGAGTACGAGTTCA-TTCATGGATGCAAACGCCCTAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTACGAGTTCACTT-ATGGATGCAAACGCCCGAACTCGTTGA
29684442 GTTGAGTCCGAGTT
65 GTTGAGTCCGAGTT
29684456 TGCTTATGGG
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTACGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:29689273 original size:48 final size:48
Alignment explanation
Indices: 29689161--29689384 Score: 317
Period size: 48 Copynumber: 4.7 Consensus size: 48
29689151 GTGCTAAATA
* *
29689161 TGCCTATGTAAGACCATGTTTGGGACATGGCATCGGTGATGA-ATATG
1 TGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATG
29689208 TGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATG
1 TGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATG
* * * *
29689256 TGTCTGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATGTG
1 TGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATG
* *
29689304 TGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATGTG
1 TGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATG
** * *
29689352 -GATTCATGTAAGACCATGTCGGGGACATGGCAT
1 TGCCT-GTGTAAGACCATGTCTGGGACATGGCAT
29689385 TGGTACTTTA
Statistics
Matches: 160, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
47 41 0.26
48 119 0.74
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (48 bp):
TGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATG
Found at i:29697003 original size:48 final size:48
Alignment explanation
Indices: 29696947--29697225 Score: 364
Period size: 48 Copynumber: 5.8 Consensus size: 48
29696937 ATGCCTGTGT
*
29696947 TATATGTGCCTGTGTAAGACTATGTCTGGGACATGGCATCAGCGATGA
1 TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGA
* * *
29696995 TATATGTGCCTATGTAAGACCATGTCTGGGACATGGCATTAGCAATGA
1 TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGA
* * * *
29697043 TATATGTGCCTATGTGAGACCATGTCTGTGACATGGCATC-GATGATGA
1 TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAG-CGATGA
* * *
29697091 TATATGTGTCTGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGA
1 TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGA
* * * * *
29697139 TATGTGTGCCAGTGTAAGACCGTTTCTGGGACATGGCTTCAGCGATGA
1 TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGA
* *
29697187 TATGTGTGCCAGTGTAAGACCATGT-TAGGGACATGGCAT
1 TATATGTGCCTGTGTAAGACCATGTCT-GGGACATGGCAT
29697226 TGGTACTTTA
Statistics
Matches: 202, Mismatches: 26, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
47 2 0.01
48 199 0.99
49 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (48 bp):
TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGA
Found at i:29704855 original size:42 final size:43
Alignment explanation
Indices: 29704755--29704893 Score: 145
Period size: 43 Copynumber: 3.3 Consensus size: 43
29704745 CATCCATTAC
* * * * * *
29704755 GAACTTGGACCACTCAACGAGCTCAGATGCTCGCATCTATAAT
1 GAACTCGGACCACTCAACGAGTTCGGATGCTCACATATATCAT
* * * *
29704798 GAACTCAGATCACTCAACGAGTTTGGATGC-CACATAAATCAT
1 GAACTCGGACCACTCAACGAGTTCGGATGCTCACATATATCAT
* * * *
29704840 GAACTTGGACCACTCAACAAGTTCGGATTCTCACATATATCAC
1 GAACTCGGACCACTCAACGAGTTCGGATGCTCACATATATCAT
29704883 GAACTCGGACC
1 GAACTCGGACC
29704894 GCTAAATGAG
Statistics
Matches: 76, Mismatches: 19, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
42 32 0.42
43 44 0.58
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.23
Consensus pattern (43 bp):
GAACTCGGACCACTCAACGAGTTCGGATGCTCACATATATCAT
Found at i:29706469 original size:43 final size:44
Alignment explanation
Indices: 29706327--29706470 Score: 122
Period size: 43 Copynumber: 3.4 Consensus size: 44
29706317 TGTGTTCTCG
* * * *
29706327 TGTAAGACCACGTCTGGGAC-GTGGGCATTGATATGTGATTACT
1 TGTAAGACCACGTCTTGGACAGTCGGCATCGATATGTGATTACA
* * * * **
29706370 TGTAAGACCATGTC-TGAAACA-TCAGCATCG-TATTTGATT-TG
1 TGTAAGACCACGTCTTG-GACAGTCGGCATCGATATGTGATTACA
*
29706411 TGCAAGACC-CTGTCTTGGACAGT-GGCATCGATATGTGATTACA
1 TGTAAGACCAC-GTCTTGGACAGTCGGCATCGATATGTGATTACA
29706454 TGTAAGACCACGTCTTG
1 TGTAAGACCACGTCTTG
29706471 TATGTTGACA
Statistics
Matches: 76, Mismatches: 17, Indels: 16
0.70 0.16 0.15
Matches are distributed among these distances:
41 20 0.26
42 20 0.26
43 35 0.46
44 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (44 bp):
TGTAAGACCACGTCTTGGACAGTCGGCATCGATATGTGATTACA
Found at i:29706675 original size:19 final size:18
Alignment explanation
Indices: 29706651--29706694 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
29706641 GATACTAATT
29706651 ATATATGATGCAAATGAAA
1 ATATATG-TGCAAATGAAA
* *
29706670 ATATATGTGTATATGAAA
1 ATATATGTGCAAATGAAA
29706688 AGTATAT
1 A-TATAT
29706695 AGGTTATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.48, C:0.02, G:0.16, T:0.34
Consensus pattern (18 bp):
ATATATGTGCAAATGAAA
Found at i:29708893 original size:30 final size:30
Alignment explanation
Indices: 29708859--29708919 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
29708849 TTCCTGAGCC
29708859 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
29708889 TAGGGGCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
29708919 T
1 T
29708920 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:29727492 original size:13 final size:13
Alignment explanation
Indices: 29727470--29727502 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
29727460 AAGGGTTTGT
29727470 TTAT-TAAACTAA
1 TTATCTAAACTAA
29727482 TTATCTAAACTAA
1 TTATCTAAACTAA
*
29727495 TTAACTAA
1 TTATCTAA
29727503 TTTAATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:29729942 original size:93 final size:93
Alignment explanation
Indices: 29729813--29729984 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
29729803 CGCACATAAG
* * *
29729813 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
29729878 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
29729906 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
29729971 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
29729985 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:29729981 original size:46 final size:46
Alignment explanation
Indices: 29729807--29729981 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
29729797 GTAACCCGCA
* * * *
29729807 CATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATC
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATC
* *
29729853 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATC
*
29729902 C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATC
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATC
*
29729946 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
29729982 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATC
Found at i:29730000 original size:46 final size:46
Alignment explanation
Indices: 29729855--29729993 Score: 144
Period size: 47 Copynumber: 3.0 Consensus size: 46
29729845 TTCGCATCCA
29729855 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * * *
29729903 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATC
29729948 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
29729994 CTAGTGACAT
Statistics
Matches: 75, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 28 0.37
47 30 0.40
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:29757329 original size:47 final size:47
Alignment explanation
Indices: 29757278--29757671 Score: 653
Period size: 47 Copynumber: 8.4 Consensus size: 47
29757268 GATGTACAAG
29757278 GTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
29757325 GTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
29757372 GTGTGTATATGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
29757419 GTGTGTACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
29757466 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
29757513 GTGTATATATGTGATAAGGCCGAAAGGCCAATGTGATGAATGTGAAA
1 GTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
29757560 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 GTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
29757607 GTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGGATGTGAAA
1 GTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
29757654 GTGTATAAATGTGATAAG
1 GTGTGTATATGTGATAAG
29757672 TCTCGAAGGG
Statistics
Matches: 327, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 327 1.00
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
GTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:29757408 original size:22 final size:22
Alignment explanation
Indices: 29757286--29757408 Score: 65
Period size: 22 Copynumber: 5.3 Consensus size: 22
29757276 AGGTGTGTAT
*
29757286 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGTCGAATGGCCA
* *
29757308 ATGTGATGAATGT-GAAAGTGTG-TA
1 ATGTGAT-AAGGTCG-AA-TG-GCCA
* *
29757332 TATGTGATAAGGCCTAATGGCCA
1 -ATGTGATAAGGTCGAATGGCCA
* *
29757355 ATGTGATGAATGT-GAAAGTGTG-TA
1 ATGTGAT-AAGGTCG-AA-TG-GCCA
29757379 TATGTGATAAGGTCGAATGGCCA
1 -ATGTGATAAGGTCGAATGGCCA
29757402 ATGTGAT
1 ATGTGAT
29757409 GAATGTGAAA
Statistics
Matches: 74, Mismatches: 13, Indels: 28
0.64 0.11 0.24
Matches are distributed among these distances:
22 24 0.32
23 16 0.22
24 17 0.23
25 17 0.23
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (22 bp):
ATGTGATAAGGTCGAATGGCCA
Found at i:29757537 original size:25 final size:25
Alignment explanation
Indices: 29757509--29757582 Score: 75
Period size: 25 Copynumber: 3.1 Consensus size: 25
29757499 TGATGAATGT
29757509 GAAAGTGTATATATGTGATAAGGCC
1 GAAAGTGTATATATGTGATAAGGCC
** * *
29757534 GAAAG-G-CCA-ATGTGATGAATG-T
1 GAAAGTGTATATATGTGAT-AAGGCC
29757556 GAAAGTGTATATATGTGATAAGGCC
1 GAAAGTGTATATATGTGATAAGGCC
29757581 GA
1 GA
29757583 GTGGCCAATG
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
22 12 0.33
23 5 0.14
24 5 0.14
25 14 0.39
ACGTcount: A:0.36, C:0.08, G:0.30, T:0.26
Consensus pattern (25 bp):
GAAAGTGTATATATGTGATAAGGCC
Found at i:29758885 original size:17 final size:18
Alignment explanation
Indices: 29758863--29758896 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
29758853 CAGATTGAAG
29758863 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
29758880 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
29758897 CTTAGAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:29760081 original size:29 final size:29
Alignment explanation
Indices: 29760015--29760108 Score: 129
Period size: 28 Copynumber: 3.3 Consensus size: 29
29760005 AAGTCTACAT
* * *
29760015 ACATGCATATAGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
29760043 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
29760072 ACATTCATATGGCCTATTAGG-CCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
29760100 ACATTCATA
1 ACATTCATA
29760109 GTCATGCTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
28 36 0.61
29 23 0.39
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:29763173 original size:43 final size:43
Alignment explanation
Indices: 29763123--29763288 Score: 228
Period size: 43 Copynumber: 3.9 Consensus size: 43
29763113 GTTACTGAGA
*
29763123 TGTGATTACATGTAAGACCATGTCTTGGACATTAGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTTGGACATTGGCATTGTAT
* **
29763166 TGTGATTA-GTGTAAGACCATGT-TTGGGACACGGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTT-GGACATTGGCATTGTAT
** *
29763208 TGTGATTACATAAAAGACCATGTCTAGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTTGGACATTGGCATTGTAT
* *
29763251 TATGATTACATGTAAGACCATGTGTTGGACATTGGCAT
1 TGTGATTACATGTAAGACCATGTCTTGGACATTGGCAT
29763289 CGTTATTCGA
Statistics
Matches: 105, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
41 2 0.02
42 35 0.33
43 67 0.64
44 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.34
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTTGGACATTGGCATTGTAT
Found at i:29763359 original size:131 final size:127
Alignment explanation
Indices: 29763125--29763376 Score: 292
Period size: 131 Copynumber: 2.0 Consensus size: 127
29763115 TACTGAGATG
* *
29763125 TGATTACATGTAAGACCATGTCTTGGACATTAGCATTGTATTGTGATTAGTGTAAGACCATGTTT
1 TGATTACATGTAAGACCATGTCTTGGACATTAGCATCGTATTGTGATTAGTGTAAGACCATGTCT
* * * *
29763190 GGGACACGGGCATTGTATTGTGATTACATAAAAGACCATGTCTAGGACATTGGCATTGTATTA
66 GGGACACGGGCATCGTATTATGATAACATAAAAGACCATATCTAGGACA-TGGCATTGTATTA
* * ** * *
29763253 TGATTACATGTAAGACCATGTGTTGGACATTGGCATCGTTATTCGATTTTTTGTGTAAGACCCTG
1 TGATTACATGTAAGACCATGTCTTGGACATTAGCATCG-TATT-G-TGATTAGTGTAAGACCATG
** * *
29763318 TCTGGGACA-GTGGCATCG-ATATATGATAACATGTAAGACCATATCTGGGATATGGCATT
63 TCTGGGACACG-GGCATCGTAT-TATGATAACATAAAAGACCATATCTAGGACATGGCATT
29763377 ATATGAGCTT
Statistics
Matches: 103, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
128 35 0.34
129 4 0.04
130 11 0.11
131 53 0.51
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (127 bp):
TGATTACATGTAAGACCATGTCTTGGACATTAGCATCGTATTGTGATTAGTGTAAGACCATGTCT
GGGACACGGGCATCGTATTATGATAACATAAAAGACCATATCTAGGACATGGCATTGTATTA
Found at i:29766265 original size:23 final size:19
Alignment explanation
Indices: 29766223--29766260 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
29766213 AAATTCGAGA
29766223 TAGAAATAATTATTTTATG
1 TAGAAATAATTATTTTATG
29766242 TAGAAATAATTATTTTATG
1 TAGAAATAATTATTTTATG
29766261 GATGTTATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (19 bp):
TAGAAATAATTATTTTATG
Found at i:29767477 original size:48 final size:48
Alignment explanation
Indices: 29767404--29767575 Score: 236
Period size: 48 Copynumber: 3.6 Consensus size: 48
29767394 ATGAGACTCT
* ** * * * *
29767404 GTGTAAGACCATTTCTAAGAAATGGCATCGGCGAGGATATATGTGCCT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCCA
* *
29767452 GTGTAAGACCATGTCTGGGACATGGCATCAGCGTTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCCA
* *
29767500 GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGACATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCCA
*
29767548 ATGTAAGACCATGTCTGGGACATGGCAT
1 GTGTAAGACCATGTCTGGGACATGGCAT
29767576 TGGTACTTTA
Statistics
Matches: 110, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 110 1.00
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCCA
Found at i:29778300 original size:43 final size:43
Alignment explanation
Indices: 29778252--29778418 Score: 153
Period size: 43 Copynumber: 3.9 Consensus size: 43
29778242 CCGAGATGTG
*
29778252 ATTACATGTAAGACCATGTCTGGGACATTGGTATTGTATTGTC
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTC
* * *
29778295 ATTACATGTAAGACCGTTTCTGGTACATTGGCATTGCTA-T-TC
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TATTGTC
*** * * *
29778337 GATTTTGTGTAAGACCCTGTCTGGGACAGTGGCATTG-ATCTGTG
1 -ATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TGTC
* * * *
29778381 ATAACATGTAAGACCATATCTAGGATA-TGGCATTGTAT
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
29778419 GAGCTTTATG
Statistics
Matches: 98, Mismatches: 20, Indels: 12
0.75 0.15 0.09
Matches are distributed among these distances:
41 1 0.01
42 10 0.10
43 84 0.86
44 3 0.03
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (43 bp):
ATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTC
Found at i:29782261 original size:49 final size:49
Alignment explanation
Indices: 29782188--29782374 Score: 232
Period size: 49 Copynumber: 3.8 Consensus size: 49
29782178 TGAGGTCACG
**
29782188 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * * *
29782237 TGTGTAGTACTAAGTGCAGACTACTATGCGTACCCGAAAACTGTGATCAC-
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCGCA
* *
29782287 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* *
29782336 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
29782375 GCTTCGGCTA
Statistics
Matches: 114, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
48 5 0.04
49 70 0.61
50 34 0.30
51 5 0.04
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:29782360 original size:99 final size:100
Alignment explanation
Indices: 29782183--29782369 Score: 322
Period size: 99 Copynumber: 1.9 Consensus size: 100
29782173 TATTGTGAGG
***
29782183 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCGCATGTGTAGTACT
29782248 AAGTGCAGACTACTATGCGTACCCGAAAACTGTGA
66 AAGTGCAGACTACTATGCGTACCCGAAAACTGTGA
*
29782283 TCAC-TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCGCATGTGTAGTACT
*
29782347 AAGTGCAGGCTACTATGCGTACC
66 AAGTGCAGACTACTATGCGTACC
29782370 AGATAGCTTC
Statistics
Matches: 82, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
99 78 0.95
100 4 0.05
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCGCATGTGTAGTACT
AAGTGCAGACTACTATGCGTACCCGAAAACTGTGA
Found at i:29783790 original size:20 final size:20
Alignment explanation
Indices: 29783762--29783799 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
29783752 CAATGTTAAA
29783762 GTTGGGAAAGACTATGGTAT
1 GTTGGGAAAGACTATGGTAT
* *
29783782 GTTGTGAAAGATTATGGT
1 GTTGGGAAAGACTATGGT
29783800 GAGTTGCAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.03, G:0.34, T:0.34
Consensus pattern (20 bp):
GTTGGGAAAGACTATGGTAT
Found at i:29783805 original size:20 final size:19
Alignment explanation
Indices: 29783761--29783805 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
29783751 GCAATGTTAA
29783761 AGTTGGGAAAGACTATGGT
1 AGTTGGGAAAGACTATGGT
* *
29783780 ATGTTGTGAAAGATTATGGT
1 A-GTTGGGAAAGACTATGGT
29783800 GAGTTG
1 -AGTTG
29783806 CAAGTTGGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 20 0.91
21 1 0.05
ACGTcount: A:0.29, C:0.02, G:0.36, T:0.33
Consensus pattern (19 bp):
AGTTGGGAAAGACTATGGT
Found at i:29788800 original size:40 final size:40
Alignment explanation
Indices: 29788755--29788836 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
29788745 AATTGAAGAG
29788755 TATAATTGAAGTAGAGGTCCTTAAATGGTAATTAAACCAT
1 TATAATTGAAGTAGAGGTCCTTAAATGGTAATTAAACCAT
29788795 TATAATTGAAGTAGAGGTCCTTAAATGGTAATTAAACCAT
1 TATAATTGAAGTAGAGGTCCTTAAATGGTAATTAAACCAT
29788835 TA
1 TA
29788837 GGTTTTCATG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (40 bp):
TATAATTGAAGTAGAGGTCCTTAAATGGTAATTAAACCAT
Found at i:29789951 original size:53 final size:53
Alignment explanation
Indices: 29789771--29789977 Score: 182
Period size: 53 Copynumber: 3.8 Consensus size: 53
29789761 ATTAGGGTTT
* * * * * *
29789771 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * * * *
29789825 AAGAAAATCATATAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * *
29789880 AAAGAT-CCAATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACC-ATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* * *
29789933 AAGGATACCACGTAAGACCATGTCAAGACATGGAAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
29789978 TAAAAAGAAA
Statistics
Matches: 118, Mismatches: 31, Indels: 9
0.75 0.20 0.06
Matches are distributed among these distances:
53 43 0.36
54 39 0.33
55 36 0.31
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:29795641 original size:53 final size:53
Alignment explanation
Indices: 29795461--29795667 Score: 198
Period size: 53 Copynumber: 3.8 Consensus size: 53
29795451 ATTAGGGTTT
* * * * * *
29795461 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAATGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * * *
29795515 AAGGAAATCATATAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * *
29795570 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* * *
29795623 AAGGATACCACGTAAGACCATGTCAAGACATGGAAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
29795668 TAAAAAGAAA
Statistics
Matches: 120, Mismatches: 31, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
53 45 0.38
54 37 0.31
55 38 0.32
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:29802766 original size:44 final size:45
Alignment explanation
Indices: 29802697--29802789 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 45
29802687 TACAACATCT
* * *
29802697 ATTCCATTAAACCAAACACGAGAATT-TTATTATAGCTCTATTCC
1 ATTCCATTAAACCAAACAAGAGAATTATGATTACAGCTCTATTCC
* **
29802741 ATTCCATTCAACCAAACAATTGAATTACTGATTACAGCTCTATTCC
1 ATTCCATTAAACCAAACAAGAGAATTA-TGATTACAGCTCTATTCC
29802787 ATT
1 ATT
29802790 ACAACTCTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 22 0.54
46 19 0.46
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.34
Consensus pattern (45 bp):
ATTCCATTAAACCAAACAAGAGAATTATGATTACAGCTCTATTCC
Found at i:29802792 original size:16 final size:16
Alignment explanation
Indices: 29802771--29802841 Score: 90
Period size: 16 Copynumber: 4.4 Consensus size: 16
29802761 TGAATTACTG
29802771 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
29802787 ATTACAACTCTATTCC
1 ATTACAGCTCTATTCC
* *
29802803 GTTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
29802819 ATTACAG-TCCTATTCT
1 ATTACAGCT-CTATTCC
29802835 ATTACAG
1 ATTACAG
29802842 TGAACCAAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
15 1 0.02
16 47 0.98
ACGTcount: A:0.28, C:0.27, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:29803867 original size:17 final size:17
Alignment explanation
Indices: 29803845--29803877 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
29803835 ACGATTAGTA
29803845 GCATAGGGAGCTTCGTT
1 GCATAGGGAGCTTCGTT
29803862 GCATAGGGAGCTTCGT
1 GCATAGGGAGCTTCGT
29803878 CGCAATGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.18, G:0.36, T:0.27
Consensus pattern (17 bp):
GCATAGGGAGCTTCGTT
Found at i:29812176 original size:30 final size:31
Alignment explanation
Indices: 29812134--29812205 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 31
29812124 AAAAGAAAAC
*
29812134 AGTTTAGTGACTTAAATAAAAACTTTTGAAT
1 AGTTTAGTGACTTAAATAAAAACTTTCGAAT
*
29812165 AGTTTA-TGACTTAAATGAAAACTTTCGAAT
1 AGTTTAGTGACTTAAATAAAAACTTTCGAAT
*
29812195 AATTTAGTGAC
1 AGTTTAGTGAC
29812206 AATTTTATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 27 0.73
31 10 0.27
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.38
Consensus pattern (31 bp):
AGTTTAGTGACTTAAATAAAAACTTTCGAAT
Found at i:29819472 original size:27 final size:26
Alignment explanation
Indices: 29819416--29819472 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
29819406 AAACATTAAC
** * *
29819416 CCTAGGGGTGTATCAATAATTTTGCT
1 CCTAGGGGTAAATCAATAATTTTCCA
*
29819442 CCTAGGGGTAAATCTATAAATTTTCCA
1 CCTAGGGGTAAATCAAT-AATTTTCCA
29819469 CCTA
1 CCTA
29819473 TAAAGGTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAATAATTTTCCA
Found at i:29823250 original size:43 final size:43
Alignment explanation
Indices: 29823202--29823301 Score: 157
Period size: 43 Copynumber: 2.3 Consensus size: 43
29823192 TTCAATGATC
* *
29823202 TCGCACACTTAGTGCCAATTAATTAG-TCGAAGTTATAATTGTA
1 TCGCACACTTAGTGCCAAATAATTAGCT-GAAGCTATAATTGTA
29823245 TCGCACACTTAGTGCCAAATAATTAGCTGAAGCTATAATTGTA
1 TCGCACACTTAGTGCCAAATAATTAGCTGAAGCTATAATTGTA
*
29823288 TCACACACTTAGTG
1 TCGCACACTTAGTG
29823302 TCATTTACTC
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
43 52 0.98
44 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (43 bp):
TCGCACACTTAGTGCCAAATAATTAGCTGAAGCTATAATTGTA
Found at i:29829748 original size:29 final size:29
Alignment explanation
Indices: 29829698--29829766 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
29829688 TAGGAATAGA
*
29829698 AAATTCCATTAGGATATCTTAAATTAATT
1 AAATTTCATTAGGATATCTTAAATTAATT
* * * *
29829727 AAATTTCATTAGGTTCTTTTAAGTTAATT
1 AAATTTCATTAGGATATCTTAAATTAATT
*
29829756 -AATTTAATTAG
1 AAATTTCATTAG
29829767 TTTATTTAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 10 0.29
29 24 0.71
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.46
Consensus pattern (29 bp):
AAATTTCATTAGGATATCTTAAATTAATT
Found at i:29832882 original size:42 final size:42
Alignment explanation
Indices: 29832771--29832892 Score: 165
Period size: 43 Copynumber: 2.9 Consensus size: 42
29832761 TACTGTACCA
* *
29832771 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
* * *
29832813 ATGCCAATAGCCCAGCTATGGTCTTACACG-AAGTCTTATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGTAA-TCTCATATCG
*
29832856 ATGCCATATCCCAGATATGGTCTTACACGTTATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
29832893 ATAATCTTAA
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 33 0.49
43 35 0.51
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
Found at i:29834718 original size:83 final size:83
Alignment explanation
Indices: 29834606--29834776 Score: 288
Period size: 83 Copynumber: 2.1 Consensus size: 83
29834596 ATGCCAAGCC
* * *
29834606 GTGTGAAAAATCCTGAGCATTCTGTTTTGAAATTTTAAGATGCAAGAGACACATGGCCAAGACAG
1 GTGTGAAAAATCCTGAGCATTCTGATTTGAAATTTTAAGATGCAAGAGACACAAGGCCAAGACAC
29834671 ACGCCCATGTGCTAGGCT
66 ACGCCCATGTGCTAGGCT
* * *
29834689 GTGTGAAAAATCCTGAGCATTCTGATTTGAAATTTTAAGATGCAGGGGACACAAGGCCAAGATAC
1 GTGTGAAAAATCCTGAGCATTCTGATTTGAAATTTTAAGATGCAAGAGACACAAGGCCAAGACAC
29834754 ACGCCCATGTGCTAGGCT
66 ACGCCCATGTGCTAGGCT
29834772 GTGTG
1 GTGTG
29834777 TCACAGACGG
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 82 1.00
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (83 bp):
GTGTGAAAAATCCTGAGCATTCTGATTTGAAATTTTAAGATGCAAGAGACACAAGGCCAAGACAC
ACGCCCATGTGCTAGGCT
Found at i:29835754 original size:25 final size:25
Alignment explanation
Indices: 29835724--29835820 Score: 72
Period size: 25 Copynumber: 3.9 Consensus size: 25
29835714 CCCTCTCTCA
29835724 AGCCATATAACAGGAAGCTCATATG
1 AGCCATATAACAGGAAGCTCATATG
* * *
29835749 AGCCATGTAACGGGAAGCTTAT-TCG
1 AGCCATATAACAGGAAGCTCATAT-G
* ** * *
29835774 GGCTGTATAACGGGAAGCTCATAAG
1 AGCCATATAACAGGAAGCTCATATG
* * *
29835799 AGCCACA-ATCAGGAAGTTCATA
1 AGCCATATAACAGGAAGCTCATA
29835821 CAAGCCAATA
Statistics
Matches: 54, Mismatches: 16, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
24 13 0.24
25 41 0.76
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.21
Consensus pattern (25 bp):
AGCCATATAACAGGAAGCTCATATG
Found at i:29836396 original size:5 final size:5
Alignment explanation
Indices: 29836367--29836405 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
29836357 TAAATTTAGC
* *
29836367 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
29836406 CATCTTAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:29842024 original size:29 final size:29
Alignment explanation
Indices: 29841968--29842023 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
29841958 GGCCCCAAAT
*
29841968 TTTTATTTTATTACTAGTATATATTTTTA
1 TTTTATTGTATTACTAGTATATATTTTTA
* *
29841997 TTTTATTGTATTAC-ATTTTATATTTTT
1 TTTTATTGTATTACTAGTATATATTTTT
29842024 TTTAAAAGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.68
Consensus pattern (29 bp):
TTTTATTGTATTACTAGTATATATTTTTA
Found at i:29845003 original size:16 final size:16
Alignment explanation
Indices: 29844971--29845004 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
29844961 GTTGATCGTT
*
29844971 AATTAAATTGTACGTC
1 AATTAAATTGCACGTC
*
29844987 AATTAAATTGCAGGTC
1 AATTAAATTGCACGTC
29845003 AA
1 AA
29845005 CATAGGAGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (16 bp):
AATTAAATTGCACGTC
Found at i:29848375 original size:24 final size:24
Alignment explanation
Indices: 29848347--29848394 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
29848337 AGATAAAGGA
29848347 AAGCTAAAGAGAGAGGCTTTAAAG
1 AAGCTAAAGAGAGAGGCTTTAAAG
* *
29848371 AAGCTAAAGAGGGAGGTTTTAAAG
1 AAGCTAAAGAGAGAGGCTTTAAAG
29848395 CTTGAATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (24 bp):
AAGCTAAAGAGAGAGGCTTTAAAG
Found at i:29851498 original size:18 final size:19
Alignment explanation
Indices: 29851472--29851508 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
29851462 TTCCAGAATA
29851472 TATTGAATTTCCAAAACGT
1 TATTGAATTTCCAAAACGT
29851491 TATT-AATTTCCAAAACGT
1 TATTGAATTTCCAAAACGT
29851509 CACTTGTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (19 bp):
TATTGAATTTCCAAAACGT
Found at i:29868210 original size:15 final size:16
Alignment explanation
Indices: 29868176--29868212 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
29868166 ACCCAACCTA
*
29868176 ACCCAAAACCCAGAAG
1 ACCCAAAACCCACAAG
29868192 -CCCAAAACCC-CAAG
1 ACCCAAAACCCACAAG
29868206 ACCCAAA
1 ACCCAAA
29868213 TCAAAAACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 3 0.16
15 16 0.84
ACGTcount: A:0.49, C:0.43, G:0.08, T:0.00
Consensus pattern (16 bp):
ACCCAAAACCCACAAG
Found at i:29868305 original size:29 final size:29
Alignment explanation
Indices: 29868273--29868337 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
29868263 TGCCCTCTGA
29868273 CACCAGCACCGGTCACCATCCCCTGGCGC
1 CACCAGCACCGGTCACCATCCCCTGGCGC
* *
29868302 CACCAGCACCGGTCACCATCCCCTGGTGT
1 CACCAGCACCGGTCACCATCCCCTGGCGC
29868331 CACCAGC
1 CACCAGC
29868338 TCTGCTCCAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.18, C:0.49, G:0.20, T:0.12
Consensus pattern (29 bp):
CACCAGCACCGGTCACCATCCCCTGGCGC
Found at i:29876787 original size:12 final size:12
Alignment explanation
Indices: 29876754--29876788 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
29876744 TGACACAAGA
29876754 TATTCTTTAAAT
1 TATTCTTTAAAT
*
29876766 TACTCTTTTAAAT
1 TATTC-TTTAAAT
29876779 TATTCTTTAA
1 TATTCTTTAA
29876789 TTAACATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.57
Consensus pattern (12 bp):
TATTCTTTAAAT
Found at i:29877191 original size:39 final size:38
Alignment explanation
Indices: 29877091--29877199 Score: 94
Period size: 44 Copynumber: 2.7 Consensus size: 38
29877081 TTTTTTTATG
* * *
29877091 CTATTACAATTCTATTCCATTCAACTAAGCATAAGAATA
1 CTATTACAGTTTTATTCCATTCAACCAA-CATAAGAATA
*
29877130 CTATTACAGTTTTATTTCATTCCATTCAACCAA-ATAATTGATTA
1 CTATTACAG---T-TTT-ATTCCATTCAACCAACATAA--GAATA
29877174 CTATTACAGTTTTATTCCATTACAAC
1 CTATTACAGTTTTATTCCATT-CAAC
29877200 TTTATTTTAT
Statistics
Matches: 58, Mismatches: 4, Indels: 15
0.75 0.05 0.19
Matches are distributed among these distances:
39 16 0.28
40 7 0.12
41 1 0.02
42 5 0.09
43 2 0.03
44 27 0.47
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.39
Consensus pattern (38 bp):
CTATTACAGTTTTATTCCATTCAACCAACATAAGAATA
Found at i:29877197 original size:16 final size:16
Alignment explanation
Indices: 29877176--29877231 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
29877166 ATTGATTACT
29877176 ATTACAGTTTTATTCC
1 ATTACAGTTTTATTCC
** **
29877192 ATTACAACTTTATTTT
1 ATTACAGTTTTATTCC
* *
29877208 ATAACAGTTCTATTCC
1 ATTACAGTTTTATTCC
29877224 ATTACAGT
1 ATTACAGT
29877232 GAACTAAACA
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.30, C:0.18, G:0.05, T:0.46
Consensus pattern (16 bp):
ATTACAGTTTTATTCC
Found at i:29878668 original size:30 final size:32
Alignment explanation
Indices: 29878605--29878668 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 32
29878595 TAATAAAAGT
* *
29878605 AAAATTGTAATTTGATCTCTTTAAAACTGATA
1 AAAATTGTAATTTAATCTCTTTAAAAATGATA
* *
29878637 AAAATT-TAATTTAAT-TTTTTAAAAATTATA
1 AAAATTGTAATTTAATCTCTTTAAAAATGATA
29878667 AA
1 AA
29878669 GATATAGACT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 14 0.50
31 8 0.29
32 6 0.21
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (32 bp):
AAAATTGTAATTTAATCTCTTTAAAAATGATA
Found at i:29879894 original size:19 final size:19
Alignment explanation
Indices: 29879859--29879899 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
29879849 CCACGAAAGG
*
29879859 AAAAATGAAACAGGGAATAA
1 AAAAATGAAACAAGGAA-AA
29879879 AAAAATGAAA-AAGGAAAA
1 AAAAATGAAACAAGGAAAA
29879897 AAA
1 AAA
29879900 GAAAAGGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 5 0.25
20 10 0.50
ACGTcount: A:0.73, C:0.02, G:0.17, T:0.07
Consensus pattern (19 bp):
AAAAATGAAACAAGGAAAA
Found at i:29880853 original size:17 final size:19
Alignment explanation
Indices: 29880811--29880854 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
29880801 TATGAAATTT
*
29880811 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
29880830 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
29880848 AA-TATTA
1 AATTATTA
29880855 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:29880964 original size:15 final size:15
Alignment explanation
Indices: 29880946--29880974 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
29880936 ATATTTATAA
29880946 AATTATTATTATTAT
1 AATTATTATTATTAT
29880961 AATTATTATTATTA
1 AATTATTATTATTA
29880975 GATAGGAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:29881930 original size:15 final size:15
Alignment explanation
Indices: 29881910--29881977 Score: 52
Period size: 15 Copynumber: 4.7 Consensus size: 15
29881900 GATTCAGTTT
29881910 TTTTCTTCTATTTTC
1 TTTTCTTCTATTTTC
* *
29881925 TTTTCTTATTTTTTC
1 TTTTCTTCTATTTTC
** *
29881940 TCCTC-TCTACTTT-
1 TTTTCTTCTATTTTC
*
29881953 TTTTCTTCT-TCTTC
1 TTTTCTTCTATTTTC
*
29881967 TTTTCCTCTAT
1 TTTTCTTCTAT
29881978 AGCCAAATCT
Statistics
Matches: 38, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
13 5 0.13
14 16 0.42
15 17 0.45
ACGTcount: A:0.06, C:0.25, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTCTTCTATTTTC
Found at i:29881969 original size:17 final size:17
Alignment explanation
Indices: 29881920--29881970 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
29881910 TTTTCTTCTA
*
29881920 TTTTCTT-TTCTT-ATT
1 TTTTCTTCTTCTTCTTT
* *
29881935 TTTTCTCCTCTCTACTTT
1 TTTTCTTCT-TCTTCTTT
29881953 TTTTCTTCTTCTTCTTT
1 TTTTCTTCTTCTTCTTT
29881970 T
1 T
29881971 CCTCTATAGC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 6 0.21
16 1 0.04
17 11 0.39
18 10 0.36
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTCTTCTTCTTCTTT
Found at i:29883495 original size:60 final size:60
Alignment explanation
Indices: 29883393--29883529 Score: 163
Period size: 60 Copynumber: 2.3 Consensus size: 60
29883383 CCAACTGTGT
*
29883393 TAATATGGGCAAGGCCCAATATATCTCGACTTGTAATAGGGCTACGACCCAGATTAATAC
1 TAATATGGGCTAGGCCCAATATATCTCGACTTGTAATAGGGCTACGACCCAGATTAATAC
* * * *
29883453 TAATATGGGCTAGGCCCAATATA-CTCTGA-TACTGTAA-GGGGCTATGGCCCAGATTAATAT
1 TAATATGGGCTAGGCCCAATATATCTC-GACT--TGTAATAGGGCTACGACCCAGATTAATAC
*
29883513 TGATATGGGCTAAGGCC
1 TAATATGGGCT-AGGCC
29883530 TAATTAACAC
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
59 4 0.06
60 53 0.79
61 10 0.15
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (60 bp):
TAATATGGGCTAGGCCCAATATATCTCGACTTGTAATAGGGCTACGACCCAGATTAATAC
Found at i:29885817 original size:9 final size:9
Alignment explanation
Indices: 29885803--29885848 Score: 65
Period size: 9 Copynumber: 5.1 Consensus size: 9
29885793 TTTGGTTAAA
*
29885803 AATTAACTG
1 AATTAACCG
*
29885812 AATTAAACG
1 AATTAACCG
*
29885821 AATTACCCG
1 AATTAACCG
29885830 AATTAACCG
1 AATTAACCG
29885839 AATTAACCG
1 AATTAACCG
29885848 A
1 A
29885849 TCACTCGAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:29885898 original size:17 final size:17
Alignment explanation
Indices: 29885876--29886010 Score: 63
Period size: 17 Copynumber: 7.4 Consensus size: 17
29885866 ATTGAATCAC
29885876 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
29885893 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
*
29885913 TACATAATTAAAAATAT
1 TACATAATTAAAAACAT
* * *
29885930 TACATAAGTCTATGAATCAC
1 TACATAA-T-TA-AAAACAT
*
29885950 TACATAATTAAAAATAT
1 TACATAATTAAAAACAT
** * **
29885967 TACATAAGTCTTTGAATCGC
1 TACATAA---TTAAAAACAT
29885987 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
29886004 TACATAA
1 TACATAA
29886011 GTCTTGAAAT
Statistics
Matches: 81, Mismatches: 28, Indels: 18
0.64 0.22 0.14
Matches are distributed among these distances:
17 41 0.51
18 3 0.04
19 3 0.04
20 34 0.42
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:29885918 original size:20 final size:20
Alignment explanation
Indices: 29885868--29885993 Score: 81
Period size: 17 Copynumber: 6.8 Consensus size: 20
29885858 TTACTCGAAT
29885868 TGAATCACTACATAA-T-TA
1 TGAATCACTACATAAGTCTA
* * * *
29885886 -AAAACATTACATAAGTCTT
1 TGAATCACTACATAAGTCTA
29885905 TGAATCACTACATAA-T-TA
1 TGAATCACTACATAAGTCTA
** *
29885923 AAAAT-ATTACATAAGTCTA
1 TGAATCACTACATAAGTCTA
29885942 TGAATCACTACATAA-T-TA
1 TGAATCACTACATAAGTCTA
** * *
29885960 AAAAT-ATTACATAAGTCTT
1 TGAATCACTACATAAGTCTA
*
29885979 TGAATCGCTACATAA
1 TGAATCACTACATAA
29885994 TTAAAAACAT
Statistics
Matches: 77, Mismatches: 22, Indels: 16
0.67 0.19 0.14
Matches are distributed among these distances:
17 27 0.35
18 12 0.16
19 12 0.16
20 26 0.34
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.33
Consensus pattern (20 bp):
TGAATCACTACATAAGTCTA
Found at i:29886029 original size:74 final size:74
Alignment explanation
Indices: 29885868--29886032 Score: 253
Period size: 74 Copynumber: 2.2 Consensus size: 74
29885858 TTACTCGAAT
* *
29885868 TGAATCACTACATAATTAAAAACATTACATAAGTCTTTGAATCACTACATAATTAAAAATATTAC
1 TGAATAACTACATAATTAAAAACATTACATAAGTCTTTGAATCACTACATAATTAAAAACATTAC
29885933 ATAAGTCTA
66 ATAAGTCTA
* * *
29885942 TGAATCACTACATAATTAAAAATATTACATAAGTCTTTGAATCGCTACATAATTAAAAACATTAC
1 TGAATAACTACATAATTAAAAACATTACATAAGTCTTTGAATCACTACATAATTAAAAACATTAC
29886007 ATAAGTCT-
66 ATAAGTCTA
29886015 TGAAATTAAC-ACATAATT
1 TG-AA-TAACTACATAATT
29886033 GAAATGTAAG
Statistics
Matches: 85, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
73 2 0.02
74 80 0.94
75 3 0.04
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.33
Consensus pattern (74 bp):
TGAATAACTACATAATTAAAAACATTACATAAGTCTTTGAATCACTACATAATTAAAAACATTAC
ATAAGTCTA
Found at i:29886032 original size:37 final size:37
Alignment explanation
Indices: 29885867--29886015 Score: 262
Period size: 37 Copynumber: 4.0 Consensus size: 37
29885857 ATTACTCGAA
29885867 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
*
29885904 TTGAATCACTACATAATTAAAAATATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
* *
29885941 ATGAATCACTACATAATTAAAAATATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
*
29885978 TTGAATCGCTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
29886015 T
1 T
29886016 GAAATTAACA
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 107 1.00
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.34
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:29887356 original size:10 final size:11
Alignment explanation
Indices: 29887340--29887372 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
29887330 CCGTTTTGTC
29887340 CCTTTTTGGCT
1 CCTTTTTGGCT
*
29887351 CGTTTTTGGCT
1 CCTTTTTGGCT
29887362 CC-TTTTGGCT
1 CCTTTTTGGCT
29887372 C
1 C
29887373 TTGGTGCTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.00, C:0.27, G:0.21, T:0.52
Consensus pattern (11 bp):
CCTTTTTGGCT
Found at i:29887358 original size:11 final size:10
Alignment explanation
Indices: 29887341--29887374 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
29887331 CGTTTTGTCC
29887341 CTTTTTGGCT
1 CTTTTTGGCT
29887351 CGTTTTTGGCT
1 C-TTTTTGGCT
*
29887362 CCTTTTGGCT
1 CTTTTTGGCT
29887372 CTT
1 CTT
29887375 GGTGCTCTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.00, C:0.24, G:0.21, T:0.56
Consensus pattern (10 bp):
CTTTTTGGCT
Found at i:29896636 original size:46 final size:46
Alignment explanation
Indices: 29896580--29896753 Score: 194
Period size: 46 Copynumber: 3.7 Consensus size: 46
29896570 ACTTGTGTGT
* * *
29896580 GCTAGTGTAAGACATGTCTGGAACATGAATCGGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTACGAGA
* *
29896626 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-G--ACATTGAGGCGAGT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATT-A--CGAGA
* **
29896674 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTACG-AGA
29896720 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
29896754 TACGAAATGT
Statistics
Matches: 109, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
45 5 0.05
46 53 0.49
47 30 0.28
48 19 0.17
49 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTACGAGA
Found at i:29896992 original size:23 final size:22
Alignment explanation
Indices: 29896966--29897014 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
29896956 GGGTTGTTTT
* *
29896966 AATACAACATTTTGGTTTACTAA
1 AATA-AACATTTTGGTCTACGAA
**
29896989 AATAATGATTTTGGTCTACGAA
1 AATAAACATTTTGGTCTACGAA
29897011 AATA
1 AATA
29897015 TGAAAAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (22 bp):
AATAAACATTTTGGTCTACGAA
Found at i:29898371 original size:39 final size:39
Alignment explanation
Indices: 29898328--29898406 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
29898318 AAAAAAACTG
*
29898328 ATCCCACTCCCCCATGCTACTTTGTTTTATTATTAATTA
1 ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
29898367 ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
1 ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
29898406 A
1 A
29898407 AACCATATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.24, C:0.29, G:0.05, T:0.42
Consensus pattern (39 bp):
ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
Found at i:29898450 original size:15 final size:16
Alignment explanation
Indices: 29898424--29898453 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
29898414 TTTTATTTCT
29898424 CTTTTATAAAAAAAAC
1 CTTTTATAAAAAAAAC
29898440 CTTTT-TAAAAAAAA
1 CTTTTATAAAAAAAA
29898454 AAACAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (16 bp):
CTTTTATAAAAAAAAC
Found at i:29900086 original size:45 final size:45
Alignment explanation
Indices: 29899883--29900507 Score: 318
Period size: 45 Copynumber: 13.7 Consensus size: 45
29899873 TTATAGCTTC
* * *
29899883 AATCTGTTCCAATGCAACTTTAGGGAGATAAGATCTGCTATC-TT
1 AATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTT
* * * * * * *
29899927 AGTCTGCTCCACTGCAACTTTAGGAAGACAAGACTTG---T-GTT
1 AATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTT
* ** * * * * *
29899968 GATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTC
1 AATCTGTTCCACTGCAACTTCAGGGAGATAAGAT-T-T-G-CTAT--CTTT
* *
29900019 AACCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTT
1 AATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTT
* * * *
29900064 AGTCTGTTCCACTGCAACTTCAGGGAGTTAAGACTTG-TGTC---
1 AATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTT
* ** * * * * *
29900105 GATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTC
1 AATCTGTTCCACTGCAACTTCAGGGAGATAAGAT-T-T-G-CTAT--CTTT
* *
29900156 AATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCTATCTTT
1 AATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTT
** * * * *
29900201 AGCCTGCTCCACTGCAACTTCAGGGAGTTAAGACTTG---T-GTT
1 AATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTT
* ** * * * * * * *
29900242 GATCTACTCTACTACAACTTTAGAGAGATGAGATCTGTGGTTTATAGCTTC
1 AATCTGTTCCACTGCAACTTCAGGGAGATAAGAT-T-T-G-CTAT--CTTT
* *
29900293 AATTTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTT
1 AATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTT
* *
29900338 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGTCGATC--T
1 AATCTGTTCCACTGCAACTTCAGGGAGATAAGA-TT-TG-CTATCTTT
* * * *
29900384 -A-CT-TT--ACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTC
1 AATCTGTTCCACTGCAACTTCAGGGAGATAAGAT-T-T-G-CTAT--CTTT
*
29900430 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTT
1 AATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTT
* *
29900475 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 AATCTGTTCCACTGCAACTTCAGGGAGATAAGA
29900508 CTTGTGTCGA
Statistics
Matches: 430, Mismatches: 106, Indels: 89
0.69 0.17 0.14
Matches are distributed among these distances:
40 1 0.00
41 101 0.23
42 8 0.02
43 4 0.01
44 39 0.09
45 135 0.31
46 5 0.01
47 15 0.03
48 13 0.03
49 6 0.01
50 4 0.01
51 99 0.23
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (45 bp):
AATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTT
Found at i:29900142 original size:137 final size:137
Alignment explanation
Indices: 29899833--29900553 Score: 1237
Period size: 137 Copynumber: 5.3 Consensus size: 137
29899823 GTTTGTTTCA
* * *
29899833 ATCTTCTCTACTGCAACTTCAGAGAGATGAGATCTGTGATTTATAGCTTCAATCTGTTCCAATGC
1 ATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTGC
* * * * * *
29899898 AACTTTAGGGAGATAAGATCTGCTATC-TTAGTCTGCTCCACTGCAACTTTAGGAAGACAAGACT
66 AACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
*
29899962 TGTGTTG
131 TGTGTCG
*
29899969 ATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAACCTGTTCCACTGC
1 ATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTGC
* *
29900034 AACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTGTTCCACTGCAACTTCAGGGAGTTAAGACT
66 AACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
29900099 TGTGTCG
131 TGTGTCG
*
29900106 ATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTAC
1 ATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTGC
* *
29900171 AACTTCAGGGAAATAAGATTTGCTATCTTTAGCCTGCTCCACTGCAACTTCAGGGAGTTAAGACT
66 AACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
*
29900236 TGTGTTG
131 TGTGTCG
* * *
29900243 ATCTACTCTACTACAACTTTAGAGAGATGAGATCTGTGGTTTATAGCTTCAATTTGTTCCACTGC
1 ATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTGC
*
29900308 AACTTCAGGGAAATAAGATTTGCTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACT
66 AACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
29900373 TGTGTCG
131 TGTGTCG
*
29900380 ATCTACTTTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTGC
1 ATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTGC
29900445 AACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
66 AACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
29900510 TGTGTCG
131 TGTGTCG
29900517 ATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGT
1 ATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGT
29900554 TATTTTCAGA
Statistics
Matches: 552, Mismatches: 32, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
136 85 0.15
137 467 0.85
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (137 bp):
ATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTGC
AACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
TGTGTCG
Found at i:29900180 original size:92 final size:90
Alignment explanation
Indices: 29900026--29900511 Score: 268
Period size: 92 Copynumber: 5.3 Consensus size: 90
29900016 TTCAACCTGT
* * * * *
29900026 TCCACTGCAACTTCAGGGAAATAAGAT-TT-G-CTATCTTTAGTCTGTTCCACTGCAACTTCAGG
1 TCCACTGCAACTTCAGAGAGATAAGATCTTGGTTTATCTTCAATCTGTTCCACTGCAACTTCAGG
*
29900088 GAGTTAAGACTTG-TGTCGATCTAC
66 GAGATAAGACTTGTTGTCGATCTAC
* * *
29900112 TCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTACAACTTC
1 TCCACTGCAACTTCAGAGAGATAAGATCT-TGGTTTAT--CTTCAATCTGTTCCACTGCAACTTC
* * * ** * *
29900177 AGGGAAATAAGATTTGCTATCTTTAGCCTGC
63 AGGGAGATAAGACTTG-T-TGTCGA-TCTAC
* * * * * *
29900208 TCCACTGCAACTTCAGGGAGTTAAGA-CTTGTGTTGATC-T--A-C---TCTACTACAACTTTAG
1 TCCACTGCAACTTCAGAGAGATAAGATCTTG-GTTTATCTTCAATCTGTTCCACTGCAACTTCAG
* * * * **
29900265 AGAGATGAGATCTGTGGTTTATAGCTTCAATTTGT
65 GGAGATAAGA-CT-T-G--T-T-G--TCGATCTAC
* * * * *
29900300 TCCACTGCAACTTCAGGGAAATAAGAT-TT-G-CTATCTTTAATCTGCTCCACTGCAACTTCAGG
1 TCCACTGCAACTTCAGAGAGATAAGATCTTGGTTTATCTTCAATCTGTTCCACTGCAACTTCAGG
29900362 GAGATAAGACTTG-TGTCGATCTAC
66 GAGATAAGACTTGTTGTCGATCTAC
** *
29900386 TTTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTGCAACTTC
1 TCCACTGCAACTTCAGAGAGATAAGATCT-TGGTTTAT--CTTCAATCTGTTCCACTGCAACTTC
* * * ** *
29900451 AGGGAAATAAGATTTGCTATCTTTAGTCTGC
63 AGGGAGATAAGACTTG-T-TGTCGA-TCTAC
*
29900482 TCCACTGCAACTTCAGGGAGATAAGA-CTTG
1 TCCACTGCAACTTCAGAGAGATAAGATCTTG
29900512 TGTCGATCTA
Statistics
Matches: 299, Mismatches: 65, Indels: 64
0.70 0.15 0.15
Matches are distributed among these distances:
86 71 0.24
87 3 0.01
88 4 0.01
89 8 0.03
90 12 0.04
92 102 0.34
93 5 0.02
94 5 0.02
95 17 0.06
96 72 0.24
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (90 bp):
TCCACTGCAACTTCAGAGAGATAAGATCTTGGTTTATCTTCAATCTGTTCCACTGCAACTTCAGG
GAGATAAGACTTGTTGTCGATCTAC
Found at i:29900407 original size:41 final size:41
Alignment explanation
Indices: 29900303--29900544 Score: 142
Period size: 45 Copynumber: 5.5 Consensus size: 41
29900293 AATTTGTTCC
* * * * * *
29900303 ACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGACTTG-TGTC---GATCTACTCT
*
29900348 ACTGCAACTTCAGGGAGATAAGACTTGTGTCGATCTACTTT
1 ACTGCAACTTCAGGGAGATAAGACTTGTGTCGATCTACTCT
* * * ** *
29900389 ACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGTTCC
1 ACTGCAACTTCAGGGAGATAAGA-CT-T-G----T-G--TCGATCTACTCT
* * * * * *
29900440 ACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGACTTG-TGTC--GA-TCTACTCT
29900485 ACTGCAACTTCAGGGAGATAAGACTTGTGTCGATCTACTCT
1 ACTGCAACTTCAGGGAGATAAGACTTGTGTCGATCTACTCT
*
29900526 ACTGCAACTTCAGAGAGAT
1 ACTGCAACTTCAGGGAGAT
29900545 GAGATCTGTT
Statistics
Matches: 155, Mismatches: 29, Indels: 30
0.72 0.14 0.14
Matches are distributed among these distances:
41 51 0.33
42 5 0.03
43 1 0.01
44 8 0.05
45 58 0.37
48 2 0.01
49 2 0.01
50 1 0.01
51 27 0.17
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (41 bp):
ACTGCAACTTCAGGGAGATAAGACTTGTGTCGATCTACTCT
Found at i:29903951 original size:28 final size:27
Alignment explanation
Indices: 29903894--29904045 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
29903884 TAAATTGTGC
* *
29903894 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
29903921 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
29903949 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
29903976 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* **
29904004 AGCACTAAGTGTGCGAGTTGATTATAA
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
29904031 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
29904046 GACTTAATAT
Statistics
Matches: 117, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 65 0.56
28 52 0.44
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:29903959 original size:55 final size:55
Alignment explanation
Indices: 29903894--29904045 Score: 232
Period size: 55 Copynumber: 2.8 Consensus size: 55
29903884 TAAATTGTGC
* *
29903894 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
29903949 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* ** *
29904004 AGCACTAAGTGTGCGAGTTGATTATAAAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
29904046 GACTTAATAT
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 89 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:29925830 original size:22 final size:22
Alignment explanation
Indices: 29925774--29925867 Score: 89
Period size: 22 Copynumber: 4.1 Consensus size: 22
29925764 TACCGATATA
* *
29925774 TCAGCTCATAAGAGCTTACTGTT
1 TCAGCTCGTCAGAGCTTACTG-T
*
29925797 CTCAGGTCGTCAGAGCTTACTGT
1 -TCAGCTCGTCAGAGCTTACTGT
* *
29925820 TCAGCTTGTCAGAGCTTACTATT
1 TCAGCTCGTCAGAGCTTACT-GT
* **
29925843 TCAACTCAACAGAGCTTACTGT
1 TCAGCTCGTCAGAGCTTACTGT
29925865 TCA
1 TCA
29925868 TCAGCTCAGG
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
22 22 0.38
23 18 0.31
24 18 0.31
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.33
Consensus pattern (22 bp):
TCAGCTCGTCAGAGCTTACTGT
Found at i:29947763 original size:56 final size:56
Alignment explanation
Indices: 29947677--29947796 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
29947667 ACAAGGGATG
29947677 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
29947733 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
29947789 ATGGGCAA
1 ATGGGCAA
29947797 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:29949611 original size:49 final size:49
Alignment explanation
Indices: 29949539--29949803 Score: 416
Period size: 49 Copynumber: 5.5 Consensus size: 49
29949529 GTGTGCATAC
29949539 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
29949588 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
29949637 GTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
29949684 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * * * * *
29949733 GTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGAT
1 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
29949780 GTGAAAGTGTATA-A-ATGTGATAAG
1 GTGAAAGTGTATATATATGTGATAAG
29949804 TCCCGAAGGG
Statistics
Matches: 201, Mismatches: 11, Indels: 10
0.91 0.05 0.05
Matches are distributed among these distances:
47 94 0.47
48 1 0.00
49 106 0.53
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (49 bp):
GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:29949661 original size:96 final size:96
Alignment explanation
Indices: 29949539--29949803 Score: 435
Period size: 96 Copynumber: 2.8 Consensus size: 96
29949529 GTGTGCATAC
*
29949539 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
29949604 ATGTGATAAGGCCTAATGGCCGATGTGATGAAT
64 ATGTGATAAGGCCTAATGGCCGATGTGATGAAT
29949637 GTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATAT
1 GTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATAT
29949702 GTGATAAGGCCTAATGGCCGATGTGATGAAT
66 GTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * * * *
29949733 GTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-AT
1 GTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATAT
29949796 GTGATAAG
66 GTGATAAG
29949804 TCCCGAAGGG
Statistics
Matches: 160, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
94 10 0.06
95 1 0.01
96 140 0.88
98 9 0.06
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (96 bp):
GTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATAT
GTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:29949978 original size:37 final size:37
Alignment explanation
Indices: 29949922--29950000 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
29949912 CCGAGCTCTA
* * *
29949922 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
29949959 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
29949996 AAGAC
1 AAGAC
29950001 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:29956895 original size:27 final size:25
Alignment explanation
Indices: 29956863--29956921 Score: 82
Period size: 27 Copynumber: 2.3 Consensus size: 25
29956853 GTTAACACTT
29956863 TGAAATGACTATATGAATTGGTTATA
1 TGAAATGACTATATGAATT-GTTATA
* *
29956889 TGGAAATAATTATATGAATTGTTATA
1 T-GAAATGACTATATGAATTGTTATA
29956915 TGAAATG
1 TGAAATG
29956922 TTTACATGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 5 0.17
26 8 0.28
27 16 0.55
ACGTcount: A:0.41, C:0.02, G:0.19, T:0.39
Consensus pattern (25 bp):
TGAAATGACTATATGAATTGTTATA
Found at i:29956915 original size:12 final size:12
Alignment explanation
Indices: 29956872--29956923 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
29956862 TTGAAATGAC
29956872 TATATGAATTGGT
1 TATATGAATT-GT
**
29956885 TATATGGAAATAAT
1 TATAT-G-AATTGT
29956899 TATATGAATTGT
1 TATATGAATTGT
*
29956911 TATATGAAATGT
1 TATATGAATTGT
29956923 T
1 T
29956924 TACATGGATA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
12 16 0.50
13 6 0.19
14 7 0.22
15 3 0.09
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.44
Consensus pattern (12 bp):
TATATGAATTGT
Found at i:29963340 original size:40 final size:40
Alignment explanation
Indices: 29963146--29963332 Score: 295
Period size: 40 Copynumber: 4.7 Consensus size: 40
29963136 TTGATAATCA
*
29963146 GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
*
29963185 GGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
* * *
29963225 GGCCAAGTCCCGAAGACAATTGTGCGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
* *
29963265 GGCTAAGTCTCGAAGGCAATTGTGCGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
*
29963305 GGCTAAGTCCCGAAGGCATTTGAGCGAG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAG
29963333 AAGCTATATC
Statistics
Matches: 135, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 7 0.05
40 128 0.95
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
Found at i:29963626 original size:22 final size:22
Alignment explanation
Indices: 29963584--29963629 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
29963574 GAGAATATGT
* *
29963584 TTATATGAAGTTATCCGTTTAG
1 TTATATGAAGCTATACGTTTAG
29963606 TTATATGAATGCTATAC-TTTAG
1 TTATATGAA-GCTATACGTTTAG
29963628 TT
1 TT
29963630 GTGCCTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.48
Consensus pattern (22 bp):
TTATATGAAGCTATACGTTTAG
Found at i:29971077 original size:40 final size:40
Alignment explanation
Indices: 29970876--29971069 Score: 309
Period size: 40 Copynumber: 4.9 Consensus size: 40
29970866 ATTCGGATTG
*
29970876 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
29970915 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
29970955 AAAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
29970995 ATAACCAGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
29971035 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
29971070 AAGCTATATC
Statistics
Matches: 142, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 13 0.09
40 129 0.91
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:29971077 original size:80 final size:80
Alignment explanation
Indices: 29970876--29971096 Score: 313
Period size: 80 Copynumber: 2.8 Consensus size: 80
29970866 ATTCGGATTG
* *
29970876 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTCCCGAAGGCA
*
29970940 TTTGTGCGAGTTACT
66 ATTGTGCGAGTTACT
* * * *
29970955 AAAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCAGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTCCCGAAGGCA
29971020 ATTGTGCGAGTTACT
66 ATTGTGCGAGTTACT
* * **
29971035 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-AAGCTATATCCA-GCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCAGGCTAAGTCCCGAAGG
29971097 TACTTGGTTT
Statistics
Matches: 125, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
79 26 0.21
80 99 0.79
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.21
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTCCCGAAGGCA
ATTGTGCGAGTTACT
Found at i:29988825 original size:93 final size:92
Alignment explanation
Indices: 29988684--29988855 Score: 217
Period size: 93 Copynumber: 1.9 Consensus size: 92
29988674 CATTTCATAG
*
29988684 CCGATGCATGTCCCAGACACGTCTTACACTGGCTTACGTCTTGAGGCTGATGCATGTCCTGGA-A
1 CCGATGCATGTCCCAGACACGTCTTACACTGGCTTACGTCTTGAGGCTGATGCATGTCCTAGACA
*
29988748 TGTCTTATACTAGCACTTGTCTCAACC
66 TGTCTTAAACTAGCACTTGTCTCAACC
* * * *
29988775 CCGATGCGATGTCCCAGACATGGTCTTACACTGG-TT-C-TCATAATGTGGCTGATGTATGTCTT
1 CCGATGC-ATGTCCCAGACA-CGTCTTACACTGGCTTACGTC-T--TGAGGCTGATGCATGTCCT
29988837 AGACATGTCTTAAACTAGC
61 AGACATGTCTTAAACTAGC
29988856 TCACACAAGC
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
90 2 0.03
91 9 0.13
92 14 0.20
93 30 0.43
94 14 0.20
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.31
Consensus pattern (92 bp):
CCGATGCATGTCCCAGACACGTCTTACACTGGCTTACGTCTTGAGGCTGATGCATGTCCTAGACA
TGTCTTAAACTAGCACTTGTCTCAACC
Found at i:29989935 original size:50 final size:50
Alignment explanation
Indices: 29989858--29990071 Score: 225
Period size: 50 Copynumber: 4.3 Consensus size: 50
29989848 GGGCTGTTAC
* * * *
29989858 ACTACACATGCGACC-AAATATCTGATACACGTAGTAGCCTACACTTAGT
1 ACTACACACGTGACCTAACTATCTGATACACGTAGTAGCCTGCACTTAGT
* *
29989907 ACTACATACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGT
1 ACTACACACGTGACCTAACTATCTGATACACGTAGTAGCCTGCACTTAGT
* * * * * * *
29989957 ACTACACACGTGA-TTGAAGTTGTCAGGTACGCATAGTAGCCTGCACTTAGT
1 ACTACACACGTGACCT-AA-CTATCTGATACACGTAGTAGCCTGCACTTAGT
* * * * *
29990008 ACTACACATGCGACCTAACTATCTGGTACACGTAGTAGCTTGCATTTAGT
1 ACTACACACGTGACCTAACTATCTGATACACGTAGTAGCCTGCACTTAGT
*
29990058 ACTAAACACGTGAC
1 ACTACACACGTGAC
29990072 ATAAAACCAT
Statistics
Matches: 133, Mismatches: 28, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
49 13 0.10
50 81 0.61
51 38 0.29
52 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (50 bp):
ACTACACACGTGACCTAACTATCTGATACACGTAGTAGCCTGCACTTAGT
Found at i:29990011 original size:101 final size:101
Alignment explanation
Indices: 29989889--29990070 Score: 283
Period size: 101 Copynumber: 1.8 Consensus size: 101
29989879 CTGATACACG
* *
29989889 TAGTAGCCTACACTTAGTACTACATACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTACACTTAGTACTACACACGCGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
*
29989954 AGTACTACACACGTGATTGAAGTTGTCAGGTACGCA
66 AGTACTAAACACGTGATTGAAGTTGTCAGGTACGCA
* * * * * *
29989990 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGCTTGCATTT
1 TAGTAGCCTACACTTAGTACTACACACGCGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
29990055 AGTACTAAACACGTGA
66 AGTACTAAACACGTGA
29990071 CATAAAACCA
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 72 1.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTACACTTAGTACTACACACGCGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
AGTACTAAACACGTGATTGAAGTTGTCAGGTACGCA
Found at i:29992742 original size:14 final size:14
Alignment explanation
Indices: 29992723--29992751 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
29992713 AAGTTCACTT
29992723 ATTATACTAATCAA
1 ATTATACTAATCAA
29992737 ATTATACTAATCAA
1 ATTATACTAATCAA
29992751 A
1 A
29992752 ATCCATTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (14 bp):
ATTATACTAATCAA
Found at i:29994231 original size:21 final size:21
Alignment explanation
Indices: 29994205--29994244 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
29994195 ACCACATTTT
*
29994205 CAGGCCACACGCCTGTGTCTC
1 CAGGCCACACGCCTATGTCTC
*
29994226 CAGGCCATACGCCTATGTC
1 CAGGCCACACGCCTATGTC
29994245 ACTAGGCCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.40, G:0.23, T:0.20
Consensus pattern (21 bp):
CAGGCCACACGCCTATGTCTC
Found at i:29994251 original size:21 final size:21
Alignment explanation
Indices: 29994205--29994252 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
29994195 ACCACATTTT
* *
29994205 CAGGCCACACGCCTGTGTCTC
1 CAGGCCACACGCCTATGTCAC
*
29994226 CAGGCCATACGCCTATGTCAC
1 CAGGCCACACGCCTATGTCAC
*
29994247 TAGGCC
1 CAGGCC
29994253 GTGTCTTTCA
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:0.19, C:0.40, G:0.23, T:0.19
Consensus pattern (21 bp):
CAGGCCACACGCCTATGTCAC
Found at i:29995602 original size:16 final size:15
Alignment explanation
Indices: 29995576--29995605 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
29995566 AACTGTTTTA
29995576 TTACAAATTTCACTC
1 TTACAAATTTCACTC
29995591 TTACATAATTTCACT
1 TTACA-AATTTCACT
29995606 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:29995858 original size:50 final size:51
Alignment explanation
Indices: 29995801--29995944 Score: 182
Period size: 50 Copynumber: 2.8 Consensus size: 51
29995791 GTAACCGAAG
* *
29995801 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCT-AA
1 CTATCTGGTACACATAGTAGCCTACACTTAGTACTACACATGCAACCTAAA
* * **
29995851 CTATCTGGTACACGTAATAGCCTACACTTAGTACTACACATGTGACCTAAAA
1 CTATCTGGTACACATAGTAGCCTACACTTAGTACTACACATGCAACCT-AAA
*** *
29995903 CTATCTTAAACACATAGTAGCCTACACATAGTACTACACATG
1 CTATCTGGTACACATAGTAGCCTACACTTAGTACTACACATG
29995945 TGTTCTAACA
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
50 42 0.52
52 38 0.47
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.26
Consensus pattern (51 bp):
CTATCTGGTACACATAGTAGCCTACACTTAGTACTACACATGCAACCTAAA
Found at i:29995927 original size:52 final size:50
Alignment explanation
Indices: 29995813--29995946 Score: 169
Period size: 52 Copynumber: 2.6 Consensus size: 50
29995803 ATCTGGTACG
* ** **
29995813 CATAGTAGCCTGCACTTAGTACTACACATGCAACCTAACTATCTGGTACA
1 CATAGTAGCCTACACTTAGTACTACACATGTGACCTAACTATCTGAAACA
* * *
29995863 CGTAATAGCCTACACTTAGTACTACACATGTGACCTAAAACTATCTTAAACA
1 CATAGTAGCCTACACTTAGTACTACACATGTGACCT--AACTATCTGAAACA
*
29995915 CATAGTAGCCTACACATAGTACTACACATGTG
1 CATAGTAGCCTACACTTAGTACTACACATGTG
29995947 TTCTAACAAT
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
50 31 0.44
52 40 0.56
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (50 bp):
CATAGTAGCCTACACTTAGTACTACACATGTGACCTAACTATCTGAAACA
Found at i:29999810 original size:14 final size:14
Alignment explanation
Indices: 29999791--29999819 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
29999781 TTTGAACTAA
29999791 TGTTTGAGCATTAC
1 TGTTTGAGCATTAC
29999805 TGTTTGAGCATTAC
1 TGTTTGAGCATTAC
29999819 T
1 T
29999820 CAACTATTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.45
Consensus pattern (14 bp):
TGTTTGAGCATTAC
Found at i:30007685 original size:47 final size:47
Alignment explanation
Indices: 30007625--30008066 Score: 704
Period size: 47 Copynumber: 9.4 Consensus size: 47
30007615 CAGCCAAGAC
*
30007625 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTCAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
30007672 AATGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
30007719 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
30007766 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
30007813 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGCGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
30007860 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
30007907 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
30007954 AGTGTATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * * * * * * *
30008001 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
30008048 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
30008067 TCCCGAAGGG
Statistics
Matches: 368, Mismatches: 27, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 368 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:30008241 original size:37 final size:37
Alignment explanation
Indices: 30008185--30008263 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
30008175 CCGAGCTCTA
* *
30008185 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
30008222 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
30008259 AAGAC
1 AAGAC
30008264 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:30010176 original size:43 final size:43
Alignment explanation
Indices: 30010128--30010230 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
30010118 TTGGTTTTCA
30010128 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
30010171 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
30010214 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
30010231 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:30010247 original size:29 final size:29
Alignment explanation
Indices: 30010212--30010286 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
30010202 GTTGTGAGAT
* *
30010212 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
30010241 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
*
30010270 TGGCACTAAGGGTGCGA
1 TGGCACTAAGTGTGCGA
30010287 CCTTACCGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:30010714 original size:40 final size:40
Alignment explanation
Indices: 30010520--30010702 Score: 210
Period size: 40 Copynumber: 4.6 Consensus size: 40
30010510 TTGAATGATG
* * *
30010520 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* *
30010560 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
30010600 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
** * *
30010640 TCCGTG-CTAAACCCCGAAGAGCATTCGTGCTGGTGTTATA
1 TCCG-GACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
30010680 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGACTAAGTCCCGAAGAGCA
30010703 ATCATGCTGG
Statistics
Matches: 125, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 109 0.87
41 8 0.06
42 7 0.06
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:30023956 original size:40 final size:39
Alignment explanation
Indices: 30023892--30023976 Score: 116
Period size: 40 Copynumber: 2.2 Consensus size: 39
30023882 ATAAATATAC
**
30023892 AGCCGAAGCTATCTCAAATTGCACACCAAGTGCCACTTTT
1 AGCCGAAGCTATCTCAAACCGCACACCAAGTGCCA-TTTT
* * *
30023932 AGCCGAAGCTATTTCGAACCGCACACTAAGTGCCATTTT
1 AGCCGAAGCTATCTCAAACCGCACACCAAGTGCCATTTT
30023971 AGCCGA
1 AGCCGA
30023977 TAAGTCATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 10 0.25
40 30 0.75
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (39 bp):
AGCCGAAGCTATCTCAAACCGCACACCAAGTGCCATTTT
Found at i:30027954 original size:43 final size:43
Alignment explanation
Indices: 30027906--30028016 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 43
30027896 TCCTAGATAT
* * *
30027906 GGTCTTACATGTTATCACAAATCGATGCCACTGTCCCACACAG
1 GGTCTTACATGTAATCACATATCGATGCCAATGTCCCACACAG
* * * * *
30027949 GGTCTTACACGAAATCAC-TATACAATGCCAATGTCCCAGACAT
1 GGTCTTACATGTAATCACATAT-CGATGCCAATGTCCCACACAG
30027992 GGTCTTACATGTAATCACATATCGA
1 GGTCTTACATGTAATCACATATCGA
30028017 GTCGATGCCA
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
42 2 0.04
43 50 0.91
44 3 0.05
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (43 bp):
GGTCTTACATGTAATCACATATCGATGCCAATGTCCCACACAG
Found at i:30028083 original size:50 final size:49
Alignment explanation
Indices: 30028010--30028152 Score: 160
Period size: 50 Copynumber: 2.9 Consensus size: 49
30028000 ATGTAATCAC
* * *
30028010 ATATCGAGTCGATGCCATGTCCCAAACATGGTCTTACGCTGACTCTCTT
1 ATATCGAGCCGATGCCATATCCCAAACATGGTCTTACACTGACTCTCTT
* *
30028059 ATATCGAGGCCGATGCCATATCCCAAACATGGTCTTACACTGGCTCTCCT
1 ATATCGA-GCCGATGCCATATCCCAAACATGGTCTTACACTGACTCTCTT
* * * * * * *
30028109 CTTTCCGTGCCAATACCATGTCCCAGACATGGTCTTACACTGAC
1 ATAT-CGAGCCGATGCCATATCCCAAACATGGTCTTACACTGAC
30028153 ACATATCAAG
Statistics
Matches: 79, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
49 7 0.09
50 70 0.89
51 2 0.03
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.28
Consensus pattern (49 bp):
ATATCGAGCCGATGCCATATCCCAAACATGGTCTTACACTGACTCTCTT
Found at i:30030949 original size:40 final size:39
Alignment explanation
Indices: 30030885--30030965 Score: 99
Period size: 40 Copynumber: 2.1 Consensus size: 39
30030875 ATATATATAC
** *
30030885 AGCCGAAGCTATCTCAAATTGCACACCAAGTGCCACTTTT
1 AGCCGAAGCTATCTCAAACCGCACACCAAGTCCCA-TTTT
* * *
30030925 AGCCGAAGCTATTTCGAACCGCACACTAAGTCCCATTTT
1 AGCCGAAGCTATCTCAAACCGCACACCAAGTCCCATTTT
30030964 AG
1 AG
30030966 TCGATAAGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
39 6 0.17
40 29 0.83
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.25
Consensus pattern (39 bp):
AGCCGAAGCTATCTCAAACCGCACACCAAGTCCCATTTT
Found at i:30035732 original size:21 final size:20
Alignment explanation
Indices: 30035690--30035727 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
30035680 GATACAAAAT
*
30035690 TTTTTATTTTTCTTTAACTA
1 TTTTTATTTTTCTATAACTA
30035710 TTTTTATTTTT-TATAACT
1 TTTTTATTTTTCTATAACT
30035728 CTATTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTATTTTTCTATAACTA
Found at i:30038171 original size:19 final size:19
Alignment explanation
Indices: 30038135--30038170 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
30038125 GTCCGAACAT
*
30038135 ATTTTGATTATCAATTTTA
1 ATTTTGATAATCAATTTTA
30038154 ATTTTGATAAT-AATTTT
1 ATTTTGATAATCAATTTT
30038171 TTAAATATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (19 bp):
ATTTTGATAATCAATTTTA
Found at i:30039089 original size:14 final size:15
Alignment explanation
Indices: 30039059--30039091 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
30039049 GGTTAATGAA
30039059 ATTTTAGAAACAATT
1 ATTTTAGAAACAATT
*
30039074 ATTTTA-AAACATTT
1 ATTTTAGAAACAATT
30039088 ATTT
1 ATTT
30039092 AATTTGGTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.48
Consensus pattern (15 bp):
ATTTTAGAAACAATT
Found at i:30039242 original size:24 final size:21
Alignment explanation
Indices: 30039184--30039243 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 21
30039174 TTAAAATAAC
30039184 ATAAAATTTGTAT-CAATCTAT
1 ATAAAATTTG-ATCCAATCTAT
*
30039205 ATGAAA-TTGATCCAATCTAGT
1 ATAAAATTTGATCCAATCTA-T
30039226 ATTAAAATTTGAATCCAA
1 A-TAAAATTTG-ATCCAA
30039244 CTGTAACACC
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
19 2 0.06
20 10 0.31
21 7 0.22
22 4 0.12
23 3 0.09
24 6 0.19
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (21 bp):
ATAAAATTTGATCCAATCTAT
Found at i:30040481 original size:29 final size:29
Alignment explanation
Indices: 30040430--30040486 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
30040420 TATGATTTGG
* *
30040430 CACACGGCTTGTCACACGACCGTGTGGCT
1 CACACGGCTTGGCACAAGACCGTGTGGCT
30040459 CACACGGCTTGGCACAA-AGCCGTGTGGC
1 CACACGGCTTGGCACAAGA-CCGTGTGGC
30040487 GTGGGTAGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 1 0.04
29 24 0.96
ACGTcount: A:0.19, C:0.33, G:0.30, T:0.18
Consensus pattern (29 bp):
CACACGGCTTGGCACAAGACCGTGTGGCT
Found at i:30059843 original size:56 final size:56
Alignment explanation
Indices: 30059774--30059894 Score: 151
Period size: 56 Copynumber: 2.2 Consensus size: 56
30059764 CATTTTAGGT
*
30059774 CCCC-TAAAAGTTGGTAAAAAAT-TTTGGGCCCCTAAAA-TCTAAATTTTTTTTGG-G
1 CCCCTTAAAAGTTGGAAAAAAATATTTGGGCCCCTAAAAGT-TAAA-TTTTTTTGGAG
* **
30059828 ACCCCTTAAAAGTTGGAAAAAAATATTTTGGCCTTTAAAAGTTAAATTTTTTTGGAG
1 -CCCCTTAAAAGTTGGAAAAAAATATTTGGGCCCCTAAAAGTTAAATTTTTTTGGAG
30059885 CCCCTTAAAA
1 CCCCTTAAAA
30059895 ACTGGAAATT
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
55 4 0.07
56 36 0.62
57 17 0.29
58 1 0.02
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35
Consensus pattern (56 bp):
CCCCTTAAAAGTTGGAAAAAAATATTTGGGCCCCTAAAAGTTAAATTTTTTTGGAG
Found at i:30066203 original size:42 final size:42
Alignment explanation
Indices: 30066157--30066303 Score: 161
Period size: 42 Copynumber: 3.5 Consensus size: 42
30066147 ATGTGTAAAG
* * *
30066157 CCATATCTGGGATATGGCATCTATATGAGACTTCGTGTAAGA
1 CCATATCTAGGATATGGCATCGATATGAGACTTCATGTAAGA
*
30066199 CCATATCTAGGATATAGCATCGATATGAGACTTCATGTAAGA
1 CCATATCTAGGATATGGCATCGATATGAGACTTCATGTAAGA
* * * * * * *
30066241 CTATAGCCAGGCTATTGGCATCGATACGAGA-TCCCATGTAATA
1 CCATATCTAGGATA-TGGCATCGATATGAGACT-TCATGTAAGA
*
30066284 CCATATCTGGGATATGGCAT
1 CCATATCTAGGATATGGCAT
30066304 TGGTATGGTA
Statistics
Matches: 86, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
42 55 0.64
43 31 0.36
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (42 bp):
CCATATCTAGGATATGGCATCGATATGAGACTTCATGTAAGA
Done.