Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 111 of 199
Found at i:31494695 original size:55 final size:55
Alignment explanation
Indices: 31494631--31494837 Score: 360
Period size: 55 Copynumber: 3.8 Consensus size: 55
31494621 TAAATTGTGC
31494631 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
31494686 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* *
31494741 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * * *
31494796 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCG
31494838 GACTTAATAT
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 147 1.00
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:31512995 original size:27 final size:27
Alignment explanation
Indices: 31512962--31513168 Score: 315
Period size: 27 Copynumber: 7.6 Consensus size: 27
31512952 TAAATTGTGC
*
31512962 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
31512989 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
31513017 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
31513044 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
31513072 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
31513099 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
31513127 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
31513154 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31513169 GACTTAATAT
Statistics
Matches: 168, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
27 91 0.54
28 77 0.46
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:31513026 original size:55 final size:55
Alignment explanation
Indices: 31512962--31513168 Score: 360
Period size: 55 Copynumber: 3.8 Consensus size: 55
31512952 TAAATTGTGC
31512962 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
31513017 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* *
31513072 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * * *
31513127 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCG
31513169 GACTTAATAT
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 147 1.00
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:31516586 original size:71 final size:71
Alignment explanation
Indices: 31516469--31516632 Score: 238
Period size: 71 Copynumber: 2.3 Consensus size: 71
31516459 TGGATAAAAA
* * *
31516469 AATCTCCAAAACACACCACACAACTCATTAAGTCGTACACTATCTCCATGTAAGTCTAGCACGTA
1 AATCTCC-AAACACACCACACTACTCATAAAGTCGTACACTATCTCCATGTAAGTCTAGCACATA
31516534 TGCTCAC
65 TGCTCAC
* * * *
31516541 AATCTCCAAAGACACCACACTACTCATAAAGTTGTACGCTATCTCCATGTAAGTGTAGCACATAT
1 AATCTCCAAACACACCACACTACTCATAAAGTCGTACACTATCTCCATGTAAGTCTAGCACATAT
31516606 GCTCAC
66 GCTCAC
* *
31516612 AAACTCTAAACACACCACACT
1 AATCTCCAAACACACCACACT
31516633 GTCTATGGTG
Statistics
Matches: 82, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
71 75 0.91
72 7 0.09
ACGTcount: A:0.36, C:0.31, G:0.10, T:0.23
Consensus pattern (71 bp):
AATCTCCAAACACACCACACTACTCATAAAGTCGTACACTATCTCCATGTAAGTCTAGCACATAT
GCTCAC
Found at i:31519846 original size:42 final size:42
Alignment explanation
Indices: 31519795--31519892 Score: 153
Period size: 42 Copynumber: 2.3 Consensus size: 42
31519785 GCTCTCGATA
*
31519795 TCGCACACTTAGT-CCCTGTTATTCAACATCATCATTTTAATT
1 TCGCACACTTAGTGCCC-ATTATTCAACATCATCATTTTAATT
* *
31519837 TCGCACACTTAGTGCCCATTATTCAACATCGTCATTTTAGTT
1 TCGCACACTTAGTGCCCATTATTCAACATCATCATTTTAATT
31519879 TCGCACACTTAGTG
1 TCGCACACTTAGTG
31519893 TCGTTCATAT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
42 49 0.94
43 3 0.06
ACGTcount: A:0.24, C:0.27, G:0.11, T:0.38
Consensus pattern (42 bp):
TCGCACACTTAGTGCCCATTATTCAACATCATCATTTTAATT
Found at i:31523037 original size:76 final size:76
Alignment explanation
Indices: 31522853--31523037 Score: 172
Period size: 76 Copynumber: 2.4 Consensus size: 76
31522843 AGAAATGTAA
** * ** *
31522853 TGTTATTTAGGCTATGTGCCTAGCAGGCTTTGTGCCGATAATATTCGGGCTCTATGCCTAGTAGG
1 TGTTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCAGATAATATTCGGGCAATATGCCTAGCAGG
* *
31522918 CTTTGTGCCGT
66 CTGTGTGCCGG
* ** * ** * * * * *
31522929 TGATATTCGAACTATGTGTCTAATAGGATTTGTGCAGGTGATATTTGGGCAATGTGCCTAGCAGG
1 TGTTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCAGATAATATTCGGGCAATATGCCTAGCAGG
* *
31522994 CTGTGTTCTGG
66 CTGTGTGCCGG
*
31523005 TGTTATTCGGGCTCTGTGCCTAGCAGGCTTTGT
1 TGTTATTCGGGCTATGTGCCTAGCAGGCTTTGT
31523038 TCTAGTGTAT
Statistics
Matches: 80, Mismatches: 29, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
76 80 1.00
ACGTcount: A:0.17, C:0.17, G:0.29, T:0.37
Consensus pattern (76 bp):
TGTTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCAGATAATATTCGGGCAATATGCCTAGCAGG
CTGTGTGCCGG
Found at i:31525314 original size:106 final size:106
Alignment explanation
Indices: 31525129--31525336 Score: 362
Period size: 106 Copynumber: 2.0 Consensus size: 106
31525119 TCACGTTTAT
* * *
31525129 GCTTATAATTGTGTATGTGTGAAATGTATTATGACTGAATGCCAAGTTATTTGATTAAATGAATT
1 GCTTATAATTGTGAATGTGTGAAATGTATTATGACTAAATGCCAAGTTATTTGATTAAACGAATT
31525194 GATATAGTCTGGGTTGCTATGATAACATAATGAGACACCAG
66 GATATAGTCTGGGTTGCTATGATAACATAATGAGACACCAG
*
31525235 GCTTATAATTGTGAATGTGTGAAATGTATTATGACTAAATGCCAAGTTATTTGATTAAACGATTT
1 GCTTATAATTGTGAATGTGTGAAATGTATTATGACTAAATGCCAAGTTATTTGATTAAACGAATT
* *
31525300 GATATTGTCTGGGTTGCTATGATAACATAATGTGACA
66 GATATAGTCTGGGTTGCTATGATAACATAATGAGACA
31525337 TAATGCATTT
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
106 96 1.00
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (106 bp):
GCTTATAATTGTGAATGTGTGAAATGTATTATGACTAAATGCCAAGTTATTTGATTAAACGAATT
GATATAGTCTGGGTTGCTATGATAACATAATGAGACACCAG
Found at i:31536077 original size:345 final size:345
Alignment explanation
Indices: 31535446--31536135 Score: 1353
Period size: 345 Copynumber: 2.0 Consensus size: 345
31535436 GTTTGGAATT
31535446 GAAATTAAGGTTTACACACTAGATTGGTGTGGTGAAATCACATTTTCGGCAAATCTAGCTAGTTT
1 GAAATTAAGGTTTACACACTAGATTGGTGTGGTGAAATCACATTTTCGGCAAATCTAGCTAGTTT
31535511 TAAGTATGTATGATAGATGATTTGTGGTATGCAATTTTATATGATTTAAATGTGTTTTAGGTTCT
66 TAAGTATGTATGATAGATGATTTGTGGTATGCAATTTTATATGATTTAAATGTGTTTTAGGTTCT
31535576 TTATAATGTGTTTGTAATGTATTTAATGTGAATGCAAAGTGTCAGACTCGTTGGGATGTCCTACA
131 TTATAATGTGTTTGTAATGTATTTAATGTGAATGCAAAGTGTCAGACTCGTTGGGATGTCCTACA
31535641 TGCAAAGAAAAAGGCAAACAAATGCTTATTTGGGCTTTTGCCATTAAAGTCAAGGTTGCAAGGTG
196 TGCAAAGAAAAAGGCAAACAAATGCTTATTTGGGCTTTTGCCATTAAAGTCAAGGTTGCAAGGTG
31535706 AGTGGTTTGGTGTGCTACAATTATGCACAAATCAAAGCATTAAAGGGGAGCTTAGGTAGCCTAAT
261 AGTGGTTTGGTGTGCTACAATTATGCACAAATCAAAGCATTAAAGGGGAGCTTAGGTAGCCTAAT
*
31535771 TATATATACTAAGTTCCATG
326 CATATATACTAAGTTCCATG
31535791 GAAATTAAGGTTTACACACTAGATTGGTGTGGTGAAATCACATTTTCGGCAAATCTAGCTAGTTT
1 GAAATTAAGGTTTACACACTAGATTGGTGTGGTGAAATCACATTTTCGGCAAATCTAGCTAGTTT
*
31535856 TAAGTATGTATGATAGATGATTTGTGGTATGCATTTTTATATGATTTAAATGTGTTTTAGGTTCT
66 TAAGTATGTATGATAGATGATTTGTGGTATGCAATTTTATATGATTTAAATGTGTTTTAGGTTCT
*
31535921 TTATAATGTGTTTGTAATGTATTTAATGTGAATGCAAAGTGTCAGACTCGTTGGGATGTCTTACA
131 TTATAATGTGTTTGTAATGTATTTAATGTGAATGCAAAGTGTCAGACTCGTTGGGATGTCCTACA
31535986 TGCAAAGAAAAAGGCAAACAAATGCTTATTTGGGCTTTTGCCATTAAAGTCAAGGTTGCAAGGTG
196 TGCAAAGAAAAAGGCAAACAAATGCTTATTTGGGCTTTTGCCATTAAAGTCAAGGTTGCAAGGTG
31536051 AGTGGTTTGGTGTGCTACAATTATGCACAAATCAAAGCATTAAAGGGGAGCTTAGGTAGCCTAAT
261 AGTGGTTTGGTGTGCTACAATTATGCACAAATCAAAGCATTAAAGGGGAGCTTAGGTAGCCTAAT
31536116 CATATATACTAAGTTCCATG
326 CATATATACTAAGTTCCATG
31536136 ACTAAGTGTT
Statistics
Matches: 342, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
345 342 1.00
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (345 bp):
GAAATTAAGGTTTACACACTAGATTGGTGTGGTGAAATCACATTTTCGGCAAATCTAGCTAGTTT
TAAGTATGTATGATAGATGATTTGTGGTATGCAATTTTATATGATTTAAATGTGTTTTAGGTTCT
TTATAATGTGTTTGTAATGTATTTAATGTGAATGCAAAGTGTCAGACTCGTTGGGATGTCCTACA
TGCAAAGAAAAAGGCAAACAAATGCTTATTTGGGCTTTTGCCATTAAAGTCAAGGTTGCAAGGTG
AGTGGTTTGGTGTGCTACAATTATGCACAAATCAAAGCATTAAAGGGGAGCTTAGGTAGCCTAAT
CATATATACTAAGTTCCATG
Found at i:31536542 original size:22 final size:23
Alignment explanation
Indices: 31536489--31536546 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
31536479 GTTATATATA
* *
31536489 TAGTTGTGTTTGAAGCGTATATT
1 TAGTTGTGTTTGGAGCGTATAAT
* *
31536512 TGGTTGTGTTTGGAGGGTA-AAT
1 TAGTTGTGTTTGGAGCGTATAAT
31536534 TAGTTGTGTTTGG
1 TAGTTGTGTTTGG
31536547 CAACCATGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 14 0.47
23 16 0.53
ACGTcount: A:0.17, C:0.02, G:0.34, T:0.47
Consensus pattern (23 bp):
TAGTTGTGTTTGGAGCGTATAAT
Found at i:31554523 original size:50 final size:50
Alignment explanation
Indices: 31554413--31554528 Score: 126
Period size: 50 Copynumber: 2.3 Consensus size: 50
31554403 TTATGAGTGG
* * * **
31554413 TCCCATGTAAGACTATGTCTGGTACATGGCGTTGGCACCGAGATAAGAGG
1 TCCCATGTAAGACCATGTCTGGTACATGGCATGGGCACCGAGATAAGAAC
** * * *
31554463 TCCCCCGTAAGACCATGTTTAGG-ACATGGCATGGGCACCGATATTAGAAC
1 TCCCATGTAAGACCATGTCT-GGTACATGGCATGGGCACCGAGATAAGAAC
31554513 TCCCATGTAAGACCAT
1 TCCCATGTAAGACCAT
31554529 ATATGGGATA
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
50 51 0.96
51 2 0.04
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGTACATGGCATGGGCACCGAGATAAGAAC
Found at i:31564987 original size:20 final size:21
Alignment explanation
Indices: 31564955--31564993 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
31564945 TGAGTTATTT
31564955 AAGTAAGCAAGTAA-TAAAAC
1 AAGTAAGCAAGTAAGTAAAAC
31564975 AAGTAAG-AGAGTAAGTAAA
1 AAGTAAGCA-AGTAAGTAAA
31564994 GAAGAAGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.06
20 12 0.71
21 4 0.24
ACGTcount: A:0.59, C:0.05, G:0.21, T:0.15
Consensus pattern (21 bp):
AAGTAAGCAAGTAAGTAAAAC
Found at i:31570719 original size:28 final size:28
Alignment explanation
Indices: 31570686--31570744 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
31570676 AGAACAGAAT
*
31570686 AATGTGGGCTTTAGCCCAATACAGAAAC
1 AATGTGGGCCTTAGCCCAATACAGAAAC
31570714 AATGTGGGCCTTAGCCCAATACAGAAAC
1 AATGTGGGCCTTAGCCCAATACAGAAAC
31570742 AAT
1 AAT
31570745 ATGCAGTATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.20
Consensus pattern (28 bp):
AATGTGGGCCTTAGCCCAATACAGAAAC
Found at i:31571212 original size:27 final size:27
Alignment explanation
Indices: 31571179--31571634 Score: 308
Period size: 27 Copynumber: 16.7 Consensus size: 27
31571169 TTACCCTATA
*
31571179 AGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTAGTAATTTTGCAAATCG
* * *
31571206 AAGGTATTTTGGTAATTTTACAAA-CTG
1 AGGGTATTTTAGTAATTTTGCAAATC-G
* * **
31571233 AGGTTA-TTTAGTCATTTCACAAATCG
1 AGGGTATTTTAGTAATTTTGCAAATCG
* * *
31571259 AGGGTATTTT-GATAATTTTTACATATTG
1 AGGGTATTTTAG-TAA-TTTTGCAAATCG
* *
31571287 AGGGTA-TTTCGATAATTTTGCAAATTG
1 AGGGTATTTTAG-TAATTTTGCAAATCG
* *
31571314 GGGGTATTTTAGTAATTTTTACAAATCG
1 AGGGTATTTTAGTAA-TTTTGCAAATCG
*
31571342 AGGGTA-TTTCGATAATTTTGCAAATCG
1 AGGGTATTTTAG-TAATTTTGCAAATCG
* * * *
31571369 GGGGTATTTCAGTAATTTTGAAAAT-T
1 AGGGTATTTTAGTAATTTTGCAAATCG
31571395 AGGGGTATTTTAGTAATTTTTGCAAATCG
1 A-GGGTATTTTAGTAA-TTTTGCAAATCG
* *
31571424 AGGGTATTTCAATAATTTTTTGCAAATC-
1 AGGGTATTTTAGTAA--TTTTGCAAATCG
* *
31571452 AGGG-ATATTTCGATAATTTTACAAATCG
1 AGGGTAT-TTTAG-TAATTTTGCAAATCG
* *
31571480 AGGGTATTTT-GATAATTTTGAAAATTG
1 AGGGTATTTTAG-TAATTTTGCAAATCG
* ** * *
31571507 GGGGTATTTCGGTAATTTTACAAA-CT
1 AGGGTATTTTAGTAATTTTGCAAATCG
* * *
31571533 AGGGGTATTTTAATAATTTTTCCAAAT-T
1 A-GGGTATTTTAGTAA-TTTTGCAAATCG
*
31571561 AGGGGTA-TTTCGATAATTTTGCAAATCG
1 A-GGGTATTTTAG-TAATTTTGCAAATCG
* *
31571589 -GGCGTATTTTAGTAATTTTACAAATTG
1 AGG-GTATTTTAGTAATTTTGCAAATCG
* *
31571616 GGGGTATTTCAGTAATTTT
1 AGGGTATTTTAGTAATTTT
31571635 TTCAAGTGAG
Statistics
Matches: 342, Mismatches: 60, Indels: 54
0.75 0.13 0.12
Matches are distributed among these distances:
26 24 0.07
27 195 0.57
28 105 0.31
29 18 0.05
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (27 bp):
AGGGTATTTTAGTAATTTTGCAAATCG
Found at i:31571330 original size:55 final size:55
Alignment explanation
Indices: 31571191--31571634 Score: 410
Period size: 55 Copynumber: 8.1 Consensus size: 55
31571181 GGTATTTTAG
* ** * * * *
31571191 TAATTTTGTAAATCGAAGGTATTTTGGTAA-TTTTACAAACTGAGGTTATTTAG-
1 TAATTTTGCAAATCGGGGGTATTTTAGTAATTTTTACAAATTGAGGGTATTTCGA
* ** * *
31571244 TCATTTCACAAATCGAGGGTATTTT-GATAATTTTTACATATTGAGGGTATTTCGA
1 TAATTTTGCAAATCGGGGGTATTTTAG-TAATTTTTACAAATTGAGGGTATTTCGA
* *
31571299 TAATTTTGCAAATTGGGGGTATTTTAGTAATTTTTACAAATCGAGGGTATTTCGA
1 TAATTTTGCAAATCGGGGGTATTTTAGTAATTTTTACAAATTGAGGGTATTTCGA
* * *
31571354 TAATTTTGCAAATCGGGGGTATTTCAGTAATTTTGA-AAATT-AGGGGTATTT-TA
1 TAATTTTGCAAATCGGGGGTATTTTAGTAATTTTTACAAATTGA-GGGTATTTCGA
* * * * *
31571407 GTAATTTTTGCAAATCGAGGGTATTTCAATAATTTTTTGCAAA-TCAGGGATATTTCGA
1 -TAA-TTTTGCAAATCGGGGGTATTTTAGTAA-TTTTTACAAATTGAGGG-TATTTCGA
* * * * *
31571465 TAATTTTACAAATCGAGGGTATTTT-GATAATTTTGA-AAATTGGGGGTATTTCGG
1 TAATTTTGCAAATCGGGGGTATTTTAG-TAATTTTTACAAATTGAGGGTATTTCGA
* * * *
31571519 TAATTTTACAAA-CTAGGGGTATTTTAATAATTTTTCCAAATT-AGGGGTATTTCGA
1 TAATTTTGCAAATC-GGGGGTATTTTAGTAATTTTTACAAATTGA-GGGTATTTCGA
* *
31571574 TAATTTTGCAAATCGGGCGTATTTTAGTAA-TTTTACAAATTGGGGGTATTTC-A
1 TAATTTTGCAAATCGGGGGTATTTTAGTAATTTTTACAAATTGAGGGTATTTCGA
31571627 GTAATTTT
1 -TAATTTT
31571635 TTCAAGTGAG
Statistics
Matches: 323, Mismatches: 47, Indels: 41
0.79 0.11 0.10
Matches are distributed among these distances:
52 1 0.00
53 27 0.08
54 98 0.30
55 151 0.47
56 33 0.10
57 12 0.04
58 1 0.00
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (55 bp):
TAATTTTGCAAATCGGGGGTATTTTAGTAATTTTTACAAATTGAGGGTATTTCGA
Found at i:31571394 original size:82 final size:81
Alignment explanation
Indices: 31571208--31571634 Score: 327
Period size: 82 Copynumber: 5.2 Consensus size: 81
31571198 GTAAATCGAA
** * * * * * *
31571208 GGTATTTTGGTAATTTTACAAACTGAGGTTA-TTTAGTCA-TTTCACAAATCGAGGGTATTTTGA
1 GGTATTTCAGTAATTTTA-AAATTGGGGGTATTTTAGTAATTTTTACAAATCGAGGGTATTTCGA
* * *
31571271 TAATTTTTACATATTGAG
65 TAA-TTTTACAAATCGGG
*
31571289 GGTATTTC-GATAATTTTGCAAATTGGGGGTATTTTAGTAATTTTTACAAATCGAGGGTATTTCG
1 GGTATTTCAG-TAATTTT-AAAATTGGGGGTATTTTAGTAATTTTTACAAATCGAGGGTATTTCG
*
31571353 ATAATTTTGCAAATCGGG
64 ATAATTTTACAAATCGGG
* * *
31571371 GGTATTTCAGTAATTTTGAAAATTAGGGGTATTTTAGTAATTTTTGCAAATCGAGGGTATTTCAA
1 GGTATTTCAGTAATTTT-AAAATTGGGGGTATTTTAGTAATTTTTACAAATCGAGGGTATTTCGA
* *
31571436 TAATTTTTTGCAAATCAGG
65 TAA--TTTTACAAATCGGG
* * * * * *
31571455 GATATTTC-GATAATTTTACAAATCGAGGGTATTTT-GATAATTTTGA-AAATTGGGGGTATTTC
1 GGTATTTCAG-TAATTTTA-AAATTGGGGGTATTTTAG-TAATTTTTACAAATCGAGGGTATTTC
* *
31571517 GGTAATTTTACAAA-CTAGG
63 GATAATTTTACAAATC-GGG
* * * * * *
31571536 GGTATTTTAATAATTTTTCCAAATTAGGGGTA-TTTCGATAA-TTTTGCAAATCG-GGCGTATTT
1 GGTATTTCAGTAA-TTTT-AAAATTGGGGGTATTTTAG-TAATTTTTACAAATCGAGG-GTATTT
* *
31571598 -TAGTAATTTTACAAATTGGG
62 CGA-TAATTTTACAAATCGGG
31571618 GGTATTTCAGTAATTTT
1 GGTATTTCAGTAATTTT
31571635 TTCAAGTGAG
Statistics
Matches: 283, Mismatches: 44, Indels: 38
0.78 0.12 0.10
Matches are distributed among these distances:
80 2 0.01
81 55 0.19
82 133 0.47
83 46 0.16
84 47 0.17
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (81 bp):
GGTATTTCAGTAATTTTAAAATTGGGGGTATTTTAGTAATTTTTACAAATCGAGGGTATTTCGAT
AATTTTACAAATCGGG
Found at i:31571635 original size:82 final size:80
Alignment explanation
Indices: 31571252--31571675 Score: 347
Period size: 82 Copynumber: 5.2 Consensus size: 80
31571242 AGTCATTTCA
* * *
31571252 CAAATCGAGGGTATTTT-GATAATTTTTACATATTGAGGGTATTTC-GATAATTTTGCAAATTGG
1 CAAATCGAGGGTATTTTAG-TAA-TTTTACAAATTGGGGGTATTTCAG-TAATTTTGCAAATTAG
* *
31571315 GGGTATTTTAGTAATTTTTA
63 GGGTATTTGA-TAA-TTTTG
* * * *
31571335 CAAATCGAGGGTA-TTTCGATAATTTTGCAAATCGGGGGTATTTCAGTAATTTTGAAAATTAGGG
1 CAAATCGAGGGTATTTTAG-TAATTTTACAAATTGGGGGTATTTCAGTAATTTTGCAAATTAGGG
*
31571399 GTATTTTAGTAATTTTTG
65 GTATTTGA-TAA-TTTTG
* * * ** * * *
31571417 CAAATCGAGGGTATTTCAATAATTTTTTGCAAATCAGGGATATTTC-GATAATTTTACAAA-TCG
1 CAAATCGAGGGTATTTTAGTAA--TTTTACAAATTGGGGGTATTTCAG-TAATTTTGCAAATTAG
31571480 AGGGTATTTTGATAATTTTG
63 -GGGTA-TTTGATAATTTTG
* * * ** * * * * *
31571500 AAAATTGGGGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTAATAATTTTTCCAAATTAGGG
1 CAAATCGAGGGTATTTTAGTAATTTTACAAATTGGGGGTATTTCAGTAA-TTTTGCAAATTAGGG
31571565 GTATTTCGATAATTTTG
65 GTATTT-GATAATTTTG
* * *
31571582 CAAATCG-GGCGTATTTTAGTAATTTTACAAATTGGGGGTATTTCAGTAATTTTTTCAAGTGAGG
1 CAAATCGAGG-GTATTTTAGTAATTTTACAAATTGGGGGTATTTCAGTAA-TTTTGCAAATTAGG
*
31571646 GGTATTTCGATAATTTTA
64 GGTATTT-GATAATTTTG
*
31571664 CAAATCGGGGGT
1 CAAATCGAGGGT
31571676 CTCGGTGACC
Statistics
Matches: 286, Mismatches: 41, Indels: 29
0.80 0.12 0.08
Matches are distributed among these distances:
81 25 0.09
82 169 0.59
83 50 0.17
84 38 0.13
85 4 0.01
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (80 bp):
CAAATCGAGGGTATTTTAGTAATTTTACAAATTGGGGGTATTTCAGTAATTTTGCAAATTAGGGG
TATTTGATAATTTTG
Found at i:31571674 original size:27 final size:27
Alignment explanation
Indices: 31571246--31571675 Score: 329
Period size: 27 Copynumber: 15.7 Consensus size: 27
31571236 TTATTTAGTC
* * *
31571246 ATTTCACAAATCGAGGGTATTTTGATA
1 ATTTTACAAATCGGGGGTATTTCGATA
* * *
31571273 ATTTTTACATATTGAGGGTATTTCGATA
1 A-TTTTACAAATCGGGGGTATTTCGATA
* * *
31571301 ATTTTGCAAATTGGGGGTATTT-TAGTA
1 ATTTTACAAATCGGGGGTATTTCGA-TA
*
31571328 ATTTTTACAAATCGAGGGTATTTCGATA
1 A-TTTTACAAATCGGGGGTATTTCGATA
*
31571356 ATTTTGCAAATCGGGGGTATTTC-AGTA
1 ATTTTACAAATCGGGGGTATTTCGA-TA
** *
31571383 ATTTTGA-AAATTAGGGGTATTT-TAGTA
1 ATTTT-ACAAATCGGGGGTATTTCGA-TA
* * *
31571410 ATTTTTGCAAATCGAGGGTATTTCAATA
1 A-TTTTACAAATCGGGGGTATTTCGATA
* * *
31571438 ATTTTTTGCAAATCAGGGATATTTCGATA
1 A--TTTTACAAATCGGGGGTATTTCGATA
* *
31571467 ATTTTACAAATCGAGGGTATTTTGATA
1 ATTTTACAAATCGGGGGTATTTCGATA
* *
31571494 ATTTTGA-AAATTGGGGGTATTTCGGTA
1 ATTTT-ACAAATCGGGGGTATTTCGATA
* **
31571521 ATTTTACAAA-CTAGGGGTATTTTAATA
1 ATTTTACAAATC-GGGGGTATTTCGATA
* **
31571548 ATTTTTCCAAATTAGGGGTATTTCGATA
1 A-TTTTACAAATCGGGGGTATTTCGATA
* * *
31571576 ATTTTGCAAATCGGGCGTATTT-TAGTA
1 ATTTTACAAATCGGGGGTATTTCGA-TA
*
31571603 ATTTTACAAATTGGGGGTATTTC-AGTA
1 ATTTTACAAATCGGGGGTATTTCGA-TA
* *
31571630 ATTTTTTCAAGT-GAGGGGTATTTCGATA
1 A-TTTTACAAATCG-GGGGTATTTCGATA
31571658 ATTTTACAAATCGGGGGT
1 ATTTTACAAATCGGGGGT
31571676 CTCGGTGACC
Statistics
Matches: 325, Mismatches: 56, Indels: 44
0.76 0.13 0.10
Matches are distributed among these distances:
26 4 0.01
27 186 0.57
28 108 0.33
29 27 0.08
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
ATTTTACAAATCGGGGGTATTTCGATA
Found at i:31575677 original size:17 final size:16
Alignment explanation
Indices: 31575649--31575694 Score: 62
Period size: 15 Copynumber: 3.0 Consensus size: 16
31575639 ACATTATCCC
31575649 TCATCC-CTCATCTCA
1 TCATCCTCTCATCTCA
31575664 TCATCCTTCTCATCTC-
1 TCATCC-TCTCATCTCA
31575680 TCATCCTCTC-TCTCA
1 TCATCCTCTCATCTCA
31575695 ACTCTCTTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 4 0.14
15 10 0.36
16 6 0.21
17 8 0.29
ACGTcount: A:0.15, C:0.46, G:0.00, T:0.39
Consensus pattern (16 bp):
TCATCCTCTCATCTCA
Found at i:31575694 original size:19 final size:16
Alignment explanation
Indices: 31575655--31575691 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
31575645 TCCCTCATCC
31575655 CTCATCTCATCATCCTT
1 CTCATCTC-TCATCCTT
31575672 CTCATCTCTCATCCTCT
1 CTCATCTCTCATCCT-T
31575689 CTC
1 CTC
31575692 TCAACTCTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.14, C:0.46, G:0.00, T:0.41
Consensus pattern (16 bp):
CTCATCTCTCATCCTT
Found at i:31583867 original size:11 final size:11
Alignment explanation
Indices: 31583853--31583881 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
31583843 AAATGATATT
31583853 TTATTATTTTA
1 TTATTATTTTA
31583864 TTATTATTTTA
1 TTATTATTTTA
31583875 TTATTAT
1 TTATTAT
31583882 ATATATAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:31584615 original size:15 final size:15
Alignment explanation
Indices: 31584590--31584624 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
31584580 GATTCTATTT
*
31584590 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
31584604 TAATTAATATTAAGA
1 TAATTAATATTAAGA
31584619 TAATTA
1 TAATTA
31584625 TTAAGAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:31584674 original size:11 final size:11
Alignment explanation
Indices: 31584647--31584678 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
31584637 TAATTGTAGG
31584647 ATTTTAT-TTT
1 ATTTTATCTTT
31584657 A-TTTATCTTT
1 ATTTTATCTTT
31584667 ATTTTATCTTT
1 ATTTTATCTTT
31584678 A
1 A
31584679 ATTAAATGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
9 5 0.25
10 5 0.25
11 10 0.50
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (11 bp):
ATTTTATCTTT
Found at i:31590143 original size:15 final size:15
Alignment explanation
Indices: 31590123--31590154 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
31590113 TCTATTTTAA
*
31590123 TAATATTAGGATAAT
1 TAATATTAAGATAAT
31590138 TAATATTAAGATAAT
1 TAATATTAAGATAAT
31590153 TA
1 TA
31590155 TTAAGAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (15 bp):
TAATATTAAGATAAT
Found at i:31590197 original size:10 final size:10
Alignment explanation
Indices: 31590179--31590226 Score: 62
Period size: 10 Copynumber: 4.9 Consensus size: 10
31590169 ATTTTAGGAT
31590179 TTTAT-TTTA
1 TTTATCTTTA
31590188 TTTATCTTTA
1 TTTATCTTTA
31590198 TTTATCTTTA
1 TTTATCTTTA
* * *
31590208 ATTAACTGTA
1 TTTATCTTTA
31590218 TTTATCTTT
1 TTTATCTTT
31590227 TGGGAATTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
9 5 0.16
10 27 0.84
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:31599206 original size:50 final size:50
Alignment explanation
Indices: 31599148--31599285 Score: 222
Period size: 50 Copynumber: 2.8 Consensus size: 50
31599138 ACTGCCAATG
** * *
31599148 CCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGGTCCCAACA
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTCCCAACA
* *
31599198 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTCCCAACA
31599248 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
31599286 ATCTCAATGA
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 82 1.00
ACGTcount: A:0.22, C:0.33, G:0.21, T:0.25
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTCCCAACA
Found at i:31601269 original size:15 final size:15
Alignment explanation
Indices: 31601249--31601278 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
31601239 AATTTATTAT
*
31601249 ATTTCATTATTTACA
1 ATTTCATTACTTACA
31601264 ATTTCATTACTTACA
1 ATTTCATTACTTACA
31601279 TCGTTTCTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTTCATTACTTACA
Found at i:31603180 original size:9 final size:9
Alignment explanation
Indices: 31603166--31603204 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
31603156 TCCATCATCC
31603166 CTCATCTCT
1 CTCATCTCT
31603175 CTCATCTCT
1 CTCATCTCT
*
31603184 CATCCTCTCT
1 C-TCATCTCT
*
31603194 CTCAACTCT
1 CTCATCTCT
31603203 CT
1 CT
31603205 TAGCTCTCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
9 18 0.69
10 8 0.31
ACGTcount: A:0.13, C:0.46, G:0.00, T:0.41
Consensus pattern (9 bp):
CTCATCTCT
Found at i:31603185 original size:16 final size:17
Alignment explanation
Indices: 31603160--31603194 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
31603150 ACTTTATCCA
31603160 TCATCCCTCAT-CTCTC
1 TCATCCCTCATCCTCTC
*
31603176 TCATCTCTCATCCTCTC
1 TCATCCCTCATCCTCTC
31603193 TC
1 TC
31603195 TCAACTCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.11, C:0.49, G:0.00, T:0.40
Consensus pattern (17 bp):
TCATCCCTCATCCTCTC
Found at i:31605846 original size:50 final size:50
Alignment explanation
Indices: 31605738--31605984 Score: 228
Period size: 50 Copynumber: 4.8 Consensus size: 50
31605728 ATTTGGGTAA
* *
31605738 AGAGATCCCATGTCAGACCATGTCTGGGACATGACATTGGCATCATTGAGATTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--TGAG---ATG
* *
31605794 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* ** * * * * *
31605844 AGAGGTCCCCCGTAAGACCATGTCTGGAACATAGCATGGGCACCGATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* * * * * *
31605894 AGA-ACTCCCACGTAAGACCATATCTGGGATATGGCATTGGCAGT-ACAAG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* * *
31605943 AAACATCCCATGTAAGACCATGTATGGGACATGGCATTGGCA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
31605985 TGTTATTATC
Statistics
Matches: 161, Mismatches: 28, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
49 38 0.24
50 80 0.50
53 4 0.02
55 1 0.01
56 38 0.24
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
Found at i:31612784 original size:50 final size:50
Alignment explanation
Indices: 31612644--31612831 Score: 171
Period size: 50 Copynumber: 3.6 Consensus size: 50
31612634 AAAGAGATCC
31612644 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTAGTAGAGGTCG
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--TGAGA-T-G-AGAGGTCG
* * * *
31612700 CATGTAAGACCATGTTTGGGATATGGCGTTGGCACTGAGATGAGAGGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTCG
* * * * * ** *
31612750 C-TCGTAAGACCATGTCTGGAACATAGCATGGGCACCGATATGAGAACTCC
1 CAT-GTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTCG
* * *
31612800 CATGTAAGACCATATATGGGATATGGCATTGG
1 CATGTAAGACCATGTCTGGGACATGGCATTGG
31612832 AAGTACAAGA
Statistics
Matches: 109, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
49 1 0.01
50 68 0.62
51 2 0.02
52 1 0.01
53 5 0.05
55 1 0.01
56 31 0.28
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.26
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTCG
Found at i:31614942 original size:6 final size:6
Alignment explanation
Indices: 31614931--31614955 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
31614921 GCGACAATGT
31614931 AAAGGA AAAGGA AAAGGA AAAGGA A
1 AAAGGA AAAGGA AAAGGA AAAGGA A
31614956 TGGTTTTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (6 bp):
AAAGGA
Found at i:31632151 original size:5 final size:5
Alignment explanation
Indices: 31632141--31632242 Score: 84
Period size: 5 Copynumber: 19.6 Consensus size: 5
31632131 ATGATGCGTA
*
31632141 AATAT AATAT AATAT AATAT AATAT AATAT AATAA ATATAT AATAT AATA-
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT A-ATAT AATAT AATAT
* * *
31632191 AGATAT AAGCA- AATAAT TATAT GAAATAT AATA- AAAATT AATAT AATAT
1 A-ATAT AA-TAT AAT-AT AATAT --AATAT AATAT AATA-T AATAT AATAT
31632240 AAT
1 AAT
31632243 TATTTTTTTT
Statistics
Matches: 79, Mismatches: 8, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
4 4 0.05
5 60 0.76
6 11 0.14
7 4 0.05
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (5 bp):
AATAT
Found at i:31633382 original size:26 final size:26
Alignment explanation
Indices: 31633353--31633406 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
31633343 AATGCTTAAC
31633353 AAATATTACATTTTATTTATTTCTTT
1 AAATATTACATTTTATTTATTTCTTT
31633379 AAATATTACATTTTATTTATTTCTTT
1 AAATATTACATTTTATTTATTTCTTT
31633405 AA
1 AA
31633407 CAGGAGGACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.59
Consensus pattern (26 bp):
AAATATTACATTTTATTTATTTCTTT
Found at i:31636340 original size:15 final size:15
Alignment explanation
Indices: 31636320--31636352 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
31636310 GAGGAGAGGA
31636320 AATTGAAAAGAAAAC
1 AATTGAAAAGAAAAC
*
31636335 AATTGAAAAGAACAC
1 AATTGAAAAGAAAAC
31636350 AAT
1 AAT
31636353 CAATTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.09, G:0.12, T:0.15
Consensus pattern (15 bp):
AATTGAAAAGAAAAC
Found at i:31636749 original size:21 final size:22
Alignment explanation
Indices: 31636725--31636768 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
31636715 TTTTTTGAAA
31636725 AAAAATC-ATAAGAATCAAAAT
1 AAAAATCAATAAGAATCAAAAT
* *
31636746 -AAAATCAATAATAATCTAAAT
1 AAAAATCAATAAGAATCAAAAT
31636767 AA
1 AA
31636769 TATGAGAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
20 6 0.32
21 12 0.63
22 1 0.05
ACGTcount: A:0.66, C:0.09, G:0.02, T:0.23
Consensus pattern (22 bp):
AAAAATCAATAAGAATCAAAAT
Found at i:31642998 original size:20 final size:20
Alignment explanation
Indices: 31642973--31643010 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
31642963 ACCCCCTTTA
31642973 TTAACATAAA-AATTTAAAAT
1 TTAACA-AAATAATTTAAAAT
31642993 TTAACAAAATAATTTAAA
1 TTAACAAAATAATTTAAA
31643011 CTAGAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
TTAACAAAATAATTTAAAAT
Found at i:31658506 original size:17 final size:17
Alignment explanation
Indices: 31658484--31658527 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
31658474 ACGATAGGCG
31658484 TGAGAGAGGATGA-GAGA
1 TGAGAG-GGATGATGAGA
31658501 TGAGAGGGATGATGAGA
1 TGAGAGGGATGATGAGA
31658518 T-A-AGGGATGA
1 TGAGAGGGATGA
31658528 GGGATAAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 8 0.31
16 7 0.27
17 11 0.42
ACGTcount: A:0.39, C:0.00, G:0.45, T:0.16
Consensus pattern (17 bp):
TGAGAGGGATGATGAGA
Found at i:31658507 original size:15 final size:15
Alignment explanation
Indices: 31658487--31658528 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
31658477 ATAGGCGTGA
31658487 GAGAGGATGAGAGAT
1 GAGAGGATGAGAGAT
31658502 GAGAGGGATGATGAGAT
1 GAGA-GGATGA-GAGAT
*
31658519 AAG-GGATGAG
1 GAGAGGATGAG
31658529 GGATAAAGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 1 0.04
15 10 0.42
16 6 0.25
17 7 0.29
ACGTcount: A:0.38, C:0.00, G:0.48, T:0.14
Consensus pattern (15 bp):
GAGAGGATGAGAGAT
Found at i:31660765 original size:23 final size:23
Alignment explanation
Indices: 31660733--31660784 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
31660723 GCAGCAATGA
*
31660733 AGAGAAAAACGACAAGAGACTGG
1 AGAGATAAACGACAAGAGACTGG
*
31660756 AGAGATAAACGACAAGAGAGTGG
1 AGAGATAAACGACAAGAGACTGG
31660779 AGAGAT
1 AGAGAT
31660785 TTTGGGGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.50, C:0.10, G:0.33, T:0.08
Consensus pattern (23 bp):
AGAGATAAACGACAAGAGACTGG
Found at i:31670927 original size:6 final size:6
Alignment explanation
Indices: 31670918--31670946 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
31670908 CTAAAATCAA
31670918 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
31670947 ACCTAAGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:31680240 original size:45 final size:45
Alignment explanation
Indices: 31680191--31680385 Score: 282
Period size: 45 Copynumber: 4.3 Consensus size: 45
31680181 TCGGCCATGG
* * * *
31680191 TGCTTCCTCAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTTAATTTCTTCCATAAATTATGCATGATGTTGGTCAAA
* *
31680236 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTTAATTTCTTCCATAAATTATGCATGATGTTGGTCAAA
* * * * *
31680281 TGCTTCCTCAAATTCTCCCATGAATTATGCATGATGTTGGTCAAG
1 TGCTTCCTTAATTTCTTCCATAAATTATGCATGATGTTGGTCAAA
*
31680326 TGCTTCCTTAATTTGTTCCATAAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTTAATTTCTTCCATAAATTATGCATGATGTTGGTCAAA
31680371 TGCTTCCTTAATTTC
1 TGCTTCCTTAATTTC
31680386 ATGCCGTTCA
Statistics
Matches: 134, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 134 1.00
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.41
Consensus pattern (45 bp):
TGCTTCCTTAATTTCTTCCATAAATTATGCATGATGTTGGTCAAA
Found at i:31680742 original size:20 final size:20
Alignment explanation
Indices: 31680717--31680771 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
31680707 ACGAGTTAAA
* *
31680717 TTGAGCTTGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTAAC
*
31680737 TTGAGCACGAATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
31680757 TTGAGCTCGAATGAG
1 TTGAGCTCGAATGAG
31680772 TTGAACCACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTAAC
Found at i:31683189 original size:66 final size:67
Alignment explanation
Indices: 31683105--31683302 Score: 328
Period size: 66 Copynumber: 3.0 Consensus size: 67
31683095 TGAATTTCTC
31683105 TTTTTTTTACGGATCTTTCACGTTCTTTTCGTCCGCGCCTAGACCGTAGGCAAAATTTTTTTTTT
1 TTTTTTTTACGGATCTTTCACGTTCTTTTCGTCCGCGCCTAGACCGTAGGCAAAATTTTTTTTTT
31683170 GA
66 GA
* * *
31683172 -TTTTTTTACGGACCTTTCACATTTTTTTCGTCCGCGCCTAGACCGTAGGC-AAATTTTTTTTTT
1 TTTTTTTTACGGATCTTTCACGTTCTTTTCGTCCGCGCCTAGACCGTAGGCAAAATTTTTTTTTT
31683235 GA
66 GA
* *
31683237 TTTTTTTTTACGGATCTTTCACGTTCTTTTCATCCGCGCCTAGACCGTAGGTAAAATTTTTTTTT
1 -TTTTTTTTACGGATCTTTCACGTTCTTTTCGTCCGCGCCTAGACCGTAGGCAAAATTTTTTTTT
31683302 T
65 T
31683303 TACAAAACCA
Statistics
Matches: 120, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
65 15 0.12
66 47 0.39
67 45 0.38
68 13 0.11
ACGTcount: A:0.17, C:0.21, G:0.15, T:0.47
Consensus pattern (67 bp):
TTTTTTTTACGGATCTTTCACGTTCTTTTCGTCCGCGCCTAGACCGTAGGCAAAATTTTTTTTTT
GA
Found at i:31683976 original size:45 final size:45
Alignment explanation
Indices: 31683927--31684121 Score: 282
Period size: 45 Copynumber: 4.3 Consensus size: 45
31683917 TCGGCCATGG
* * * *
31683927 TGCTTCCTCAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTTAATTTCTTCCATAAATTATGCATGATGTTGGTCAAA
* *
31683972 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTTAATTTCTTCCATAAATTATGCATGATGTTGGTCAAA
* * * * *
31684017 TGCTTCCTCAAATTCTTCCATGAATTATGTATGATGTTGGTCAAG
1 TGCTTCCTTAATTTCTTCCATAAATTATGCATGATGTTGGTCAAA
*
31684062 TGCTTCCTTAATTTGTTCCATAAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTTAATTTCTTCCATAAATTATGCATGATGTTGGTCAAA
31684107 TGCTTCCTTAATTTC
1 TGCTTCCTTAATTTC
31684122 ATGCCGTTCA
Statistics
Matches: 134, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 134 1.00
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.42
Consensus pattern (45 bp):
TGCTTCCTTAATTTCTTCCATAAATTATGCATGATGTTGGTCAAA
Found at i:31684467 original size:20 final size:20
Alignment explanation
Indices: 31684436--31684507 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
31684426 AGCTAATAAC
* *
31684436 GAGCTC-AATGAGTTAAATT
1 GAGCTCGAATGAGCTAACTT
* *
31684455 GAGCTTGAATGAGCTGACTT
1 GAGCTCGAATGAGCTAACTT
*
31684475 GAGCACGAATGAGCTAACTT
1 GAGCTCGAATGAGCTAACTT
31684495 GAGCTCGAATGAG
1 GAGCTCGAATGAG
31684508 TTGAACCACA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 5 0.11
20 39 0.89
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.25
Consensus pattern (20 bp):
GAGCTCGAATGAGCTAACTT
Found at i:31697164 original size:14 final size:14
Alignment explanation
Indices: 31697145--31697172 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
31697135 GTTTAAAGAT
31697145 GATTAAAAACTAAG
1 GATTAAAAACTAAG
31697159 GATTAAAAACTAAG
1 GATTAAAAACTAAG
31697173 TAAGAAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.14, T:0.21
Consensus pattern (14 bp):
GATTAAAAACTAAG
Found at i:31707481 original size:15 final size:15
Alignment explanation
Indices: 31707454--31707495 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
31707444 AAATCTAAAC
*
31707454 TAAATACATATTTAA
1 TAAATAAATATTTAA
* *
31707469 TAATTAAATATTTAG
1 TAAATAAATATTTAA
31707484 TAAATAAATATT
1 TAAATAAATATT
31707496 AAACTTTTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (15 bp):
TAAATAAATATTTAA
Found at i:31711514 original size:3 final size:3
Alignment explanation
Indices: 31711506--31711546 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
31711496 CTCTGTGGGA
*
31711506 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TTT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
31711547 GGGATCCTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:31713403 original size:29 final size:30
Alignment explanation
Indices: 31713344--31713404 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
31713334 TGCCTTTGAA
* * *
31713344 AATATTTACAAAAAGAGACATCTAATTTTT
1 AATATTTACAAAAAGAGACAACCAAATTTT
*
31713374 AATATTTACAAAAAGTG-CAACCAAATTTT
1 AATATTTACAAAAAGAGACAACCAAATTTT
31713403 AA
1 AA
31713405 AAATAGTTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 11 0.41
30 16 0.59
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACAACCAAATTTT
Found at i:31719201 original size:8 final size:8
Alignment explanation
Indices: 31719185--31719220 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
31719175 CCAAAATGCA
31719185 AAATTCAC
1 AAATTCAC
*
31719193 AAATCCAC
1 AAATTCAC
31719201 AAATTCAC
1 AAATTCAC
31719209 AAATTCAC
1 AAATTCAC
31719217 AAAT
1 AAAT
31719221 AATGACTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.22
Consensus pattern (8 bp):
AAATTCAC
Found at i:31723207 original size:27 final size:26
Alignment explanation
Indices: 31723168--31723360 Score: 215
Period size: 27 Copynumber: 7.2 Consensus size: 26
31723158 AGAGGTCAAT
* *
31723168 AAATGATCGAAATACCTCTATAGGGTA
1 AAATGACCGAAATACC-CCATAGGGTA
* *
31723195 AAATGACCAAAATACCGCCATAGGATA
1 AAATGACCGAAATACC-CCATAGGGTA
*
31723222 AAATGACCGAAATACCTCATAGGGTA
1 AAATGACCGAAATACCCCATAGGGTA
* *
31723248 AAATGACTGAAATAGCCCTATAGGGTA
1 AAATGACCGAAATA-CCCCATAGGGTA
* ***
31723275 AAATAATTAAAATACCCCATAGGGTA
1 AAATGACCGAAATACCCCATAGGGTA
* *
31723301 AAATGACCAAAATACCCTTATAGGGTA
1 AAATGACCGAAATACCC-CATAGGGTA
*
31723328 AAATGATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATA-CCCCATAGGGTA
31723355 AAATGA
1 AAATGA
31723361 TTGATATACC
Statistics
Matches: 141, Mismatches: 22, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
26 46 0.33
27 92 0.65
28 3 0.02
ACGTcount: A:0.45, C:0.18, G:0.17, T:0.21
Consensus pattern (26 bp):
AAATGACCGAAATACCCCATAGGGTA
Found at i:31723250 original size:53 final size:52
Alignment explanation
Indices: 31723168--31723360 Score: 251
Period size: 53 Copynumber: 3.6 Consensus size: 52
31723158 AGAGGTCAAT
* * *
31723168 AAATGATCGAAATACCTCTATAGGGTAAAATGACCAAAATACCGCCATAGGATA
1 AAATGATCGAAATACC-CCATAGGGTAAAATGACCAAAATACC-CTATAGGGTA
* * **
31723222 AAATGACCGAAATACCTCATAGGGTAAAATGACTGAAATAGCCCTATAGGGTA
1 AAATGATCGAAATACCCCATAGGGTAAAATGACCAAAATA-CCCTATAGGGTA
* **
31723275 AAATAATTAAAATACCCCATAGGGTAAAATGACCAAAATACCCTTATAGGGTA
1 AAATGATCGAAATACCCCATAGGGTAAAATGACCAAAATACCC-TATAGGGTA
31723328 AAATGATCGAAATACCCCCATAGGGTAAAATGA
1 AAATGATCGAAATA-CCCCATAGGGTAAAATGA
31723361 TTGATATACC
Statistics
Matches: 119, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
52 3 0.03
53 81 0.68
54 35 0.29
ACGTcount: A:0.45, C:0.18, G:0.17, T:0.21
Consensus pattern (52 bp):
AAATGATCGAAATACCCCATAGGGTAAAATGACCAAAATACCCTATAGGGTA
Found at i:31723324 original size:80 final size:78
Alignment explanation
Indices: 31723168--31723377 Score: 271
Period size: 80 Copynumber: 2.6 Consensus size: 78
31723158 AGAGGTCAAT
** *
31723168 AAATGATCGAAATACCTCTATAGGGTAAAATGACCAAAATACCGCCATAGGATAAAATGACCGAA
1 AAATGATCGAAATACC-CTATAGGGTAAAATGATTAAAATACC-CCATAGGATAAAATGACCAAA
31723233 ATACCTCATAGGGTA
64 ATACCTCATAGGGTA
* *
31723248 AAATGA-CTGAAATAGCCCTATAGGGTAAAATAATTAAAATACCCCATAGGGTAAAATGACCAAA
1 AAATGATC-GAAATA-CCCTATAGGGTAAAATGATTAAAATACCCCATAGGATAAAATGACCAAA
*
31723312 ATACCCTTATAGGGTA
64 ATA-CCTCATAGGGTA
* * *
31723328 AAATGATCGAAATACCCCCATAGGGTAAAATGATTGATATACCCC-TAGGA
1 AAATGATCGAAATA-CCCTATAGGGTAAAATGATTAAAATACCCCATAGGA
31723378 GATGAAATGA
Statistics
Matches: 114, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
79 27 0.24
80 84 0.74
81 3 0.03
ACGTcount: A:0.43, C:0.18, G:0.17, T:0.21
Consensus pattern (78 bp):
AAATGATCGAAATACCCTATAGGGTAAAATGATTAAAATACCCCATAGGATAAAATGACCAAAAT
ACCTCATAGGGTA
Found at i:31723558 original size:26 final size:26
Alignment explanation
Indices: 31723520--31723600 Score: 117
Period size: 26 Copynumber: 3.1 Consensus size: 26
31723510 TAGAGGAAGT
* *
31723520 ATACTATTTCTGGTAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
* *
31723546 ATACTGTTACTGGCAGCTTTGTTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
*
31723572 ATACTATTACTGGCAGCTTTGCTACG
1 ATACTATTACTGGCAGCTTTGCTGCG
31723598 ATA
1 ATA
31723601 TTGGTGTGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTGCG
Found at i:31723751 original size:28 final size:27
Alignment explanation
Indices: 31723711--31723773 Score: 99
Period size: 28 Copynumber: 2.3 Consensus size: 27
31723701 GTACTAATTT
31723711 TGTACTGGGCTAAGGCCCACACTGTTAC
1 TGTACTGGGCTAAGGCCCACACTG-TAC
*
31723739 TGTATTGGGCTAAGGCCCACACTGTAC
1 TGTACTGGGCTAAGGCCCACACTGTAC
31723766 TGTTACTG
1 TG-TACTG
31723774 AATAAGGCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 5 0.16
28 27 0.84
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (27 bp):
TGTACTGGGCTAAGGCCCACACTGTAC
Found at i:31723779 original size:27 final size:28
Alignment explanation
Indices: 31723711--31723781 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 28
31723701 GTACTAATTT
**
31723711 TGTACTGGGCTAAGGCCCACACTGTTAC
1 TGTACTGGAATAAGGCCCACACTGTTAC
* **
31723739 TGTATTGGGCTAAGGCCCACACTG-TAC
1 TGTACTGGAATAAGGCCCACACTGTTAC
31723766 TGTTACT-GAATAAGGC
1 TG-TACTGGAATAAGGC
31723782 TCGAGCCTAG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 12 0.32
28 26 0.68
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (28 bp):
TGTACTGGAATAAGGCCCACACTGTTAC
Found at i:31730658 original size:20 final size:19
Alignment explanation
Indices: 31730631--31730672 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
31730621 CTTTCAAAAT
31730631 TTTCTTACTTT-CATTTGCA
1 TTTCTTACTTTCCA-TTGCA
31730650 TTTCATTACTTTCCATTGCA
1 TTTC-TTACTTTCCATTGCA
31730670 TTT
1 TTT
31730673 ACTTTCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 15 0.71
21 2 0.10
ACGTcount: A:0.17, C:0.21, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTCTTACTTTCCATTGCA
Found at i:31735276 original size:18 final size:18
Alignment explanation
Indices: 31735255--31735292 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
31735245 AGTTTGTGGG
31735255 ATTGTTTTGGGCTGCTCA
1 ATTGTTTTGGGCTGCTCA
31735273 ATTGTTTTGGGCTGCTCA
1 ATTGTTTTGGGCTGCTCA
31735291 AT
1 AT
31735293 GCTCGATTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.13, C:0.16, G:0.26, T:0.45
Consensus pattern (18 bp):
ATTGTTTTGGGCTGCTCA
Found at i:31735791 original size:23 final size:23
Alignment explanation
Indices: 31735759--31735809 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
31735749 GCATATACTC
* *
31735759 TTGAG-ATGATAACTCTAATGGT
1 TTGAGTATGATAACTATAATGAT
31735781 TTGAGTATGATAACTATAATGAT
1 TTGAGTATGATAACTATAATGAT
31735804 TTGAGT
1 TTGAGT
31735810 GGAACTTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 5 0.19
23 21 0.81
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.39
Consensus pattern (23 bp):
TTGAGTATGATAACTATAATGAT
Found at i:31740424 original size:21 final size:19
Alignment explanation
Indices: 31740399--31740437 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
31740389 TGTGCCATAT
31740399 TACATTCGTATATAATATTTG
1 TACATTCG-AT-TAATATTTG
*
31740420 TACATTTGATTAATATTT
1 TACATTCGATTAATATTT
31740438 AAGGTCTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 2 0.12
21 7 0.41
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.51
Consensus pattern (19 bp):
TACATTCGATTAATATTTG
Found at i:31746663 original size:19 final size:19
Alignment explanation
Indices: 31746620--31746656 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
31746610 CTAAAATAAT
* *
31746620 TAATTTAAATTTTACTTGA
1 TAATTAAAATTTTAATTGA
31746639 TAATTAAAATTTTAATTG
1 TAATTAAAATTTTAATTG
31746657 GAAATTATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (19 bp):
TAATTAAAATTTTAATTGA
Found at i:31760581 original size:23 final size:23
Alignment explanation
Indices: 31760554--31760675 Score: 190
Period size: 23 Copynumber: 5.3 Consensus size: 23
31760544 AGTGTTATTG
31760554 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
31760577 TTCAGTGGTAGCTACAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
31760600 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
31760623 TTCAGTGGTAGCTACGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
31760646 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
31760669 ATCAGTG
1 ATCAGTG
31760676 TGGCACTTAT
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 87 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:31760606 original size:46 final size:46
Alignment explanation
Indices: 31760554--31760675 Score: 217
Period size: 46 Copynumber: 2.7 Consensus size: 46
31760544 AGTGTTATTG
31760554 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACAGCTACAT
* *
31760600 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACAGCTACAT
*
31760646 ATCAGTGGTAGCTTCGGCTACATATCAGTG
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTG
31760676 TGGCACTTAT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.30
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACAGCTACAT
Found at i:31765386 original size:24 final size:26
Alignment explanation
Indices: 31765356--31765407 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
31765346 TTTATTTTTA
*
31765356 TAATAATATTAAATTTT-AATAAAATAG
1 TAATAATA--AAATTTTGAAAAAAATAG
31765383 TAATAATAAAATTTTGAAAAAAATA
1 TAATAATAAAATTTTGAAAAAAATA
31765408 CAAAAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 7 0.30
26 8 0.35
27 8 0.35
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (26 bp):
TAATAATAAAATTTTGAAAAAAATAG
Found at i:31765486 original size:31 final size:29
Alignment explanation
Indices: 31765448--31765536 Score: 99
Period size: 31 Copynumber: 3.0 Consensus size: 29
31765438 AACTTTTCAA
*
31765448 AAATTACATTTTGACCCCTAATTTTTTTCT
1 AAATTACATTTTGACCCCTAA-TATTTTCT
* *
31765478 AAATTTACATCTTGACCCCTAATATTTTGT
1 AAA-TTACATTTTGACCCCTAATATTTTCT
* * *
31765508 AAATTACATTTGGGCCCCTAA-ACTTTCT
1 AAATTACATTTTGACCCCTAATATTTTCT
31765536 A
1 A
31765537 GAAATTTCCT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
28 6 0.12
29 15 0.30
30 12 0.24
31 17 0.34
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (29 bp):
AAATTACATTTTGACCCCTAATATTTTCT
Found at i:31766147 original size:19 final size:19
Alignment explanation
Indices: 31766102--31766140 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
31766092 TTGTCGAAAT
31766102 AGAAGAGAAAAATAGGAGAA
1 AGAA-AGAAAAATAGGAGAA
31766122 AGAAAGAAAAA-AGGA-AA
1 AGAAAGAAAAATAGGAGAA
31766139 AG
1 AG
31766141 GAAAAGAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 4 0.21
19 7 0.37
20 4 0.21
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (19 bp):
AGAAAGAAAAATAGGAGAA
Found at i:31766300 original size:7 final size:7
Alignment explanation
Indices: 31766283--31766334 Score: 70
Period size: 7 Copynumber: 7.4 Consensus size: 7
31766273 AGAAAGAAAG
31766283 AAATA-A
1 AAATAGA
31766289 AAATAGA
1 AAATAGA
31766296 AAATAGA
1 AAATAGA
31766303 AAATAGA
1 AAATAGA
31766310 AAATAGAA
1 AAATAG-A
*
31766318 AAAAAGA
1 AAATAGA
*
31766325 AAAAAGA
1 AAATAGA
31766332 AAA
1 AAA
31766335 AAATTTAAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
6 5 0.12
7 32 0.74
8 6 0.14
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.10
Consensus pattern (7 bp):
AAATAGA
Found at i:31766320 original size:15 final size:15
Alignment explanation
Indices: 31766287--31766335 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
31766277 AGAAAGAAAT
31766287 AAAAATAGAAAATAG
1 AAAAATAGAAAATAG
31766302 -AAAATAGAAAATAG
1 AAAAATAGAAAATAG
* *
31766316 AAAAAAAGAAAAAAG
1 AAAAATAGAAAATAG
31766331 AAAAA
1 AAAAA
31766336 AATTTAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 14 0.45
15 17 0.55
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (15 bp):
AAAAATAGAAAATAG
Found at i:31766335 original size:7 final size:7
Alignment explanation
Indices: 31766268--31766336 Score: 66
Period size: 7 Copynumber: 9.3 Consensus size: 7
31766258 GAAGAAGAAG
31766268 AAGAAAGA
1 AAGAAA-A
31766276 AAGAAAGA
1 AAGAAA-A
*
31766284 AATAAAA
1 AAGAAAA
31766291 ATAGAAAA
1 A-AGAAAA
*
31766299 TAGAAAA
1 AAGAAAA
*
31766306 TAGAAAA
1 AAGAAAA
*
31766313 TAGAAAAA
1 AAG-AAAA
31766321 AAGAAAA
1 AAGAAAA
31766328 AAGAAAA
1 AAGAAAA
31766335 AA
1 AA
31766337 ATTTAAAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
7 31 0.56
8 24 0.44
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.07
Consensus pattern (7 bp):
AAGAAAA
Found at i:31766335 original size:14 final size:14
Alignment explanation
Indices: 31766268--31766336 Score: 66
Period size: 15 Copynumber: 4.6 Consensus size: 14
31766258 GAAGAAGAAG
31766268 AAGAAAGAAAGAAAGA
1 AAGAAA-AAAGAAA-A
*
31766284 AATAAAAATAGAAAA
1 AAGAAAAA-AGAAAA
* *
31766299 TAGAAAATAGAAAA
1 AAGAAAAAAGAAAA
*
31766313 TAGAAAAAAAGAAAA
1 AAG-AAAAAAGAAAA
31766328 AAGAAAAAA
1 AAGAAAAAA
31766337 ATTTAAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
14 15 0.33
15 20 0.44
16 10 0.22
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.07
Consensus pattern (14 bp):
AAGAAAAAAGAAAA
Found at i:31766646 original size:75 final size:75
Alignment explanation
Indices: 31766503--31766674 Score: 188
Period size: 75 Copynumber: 2.3 Consensus size: 75
31766493 AGGCCCAATT
* * * *
31766503 CACCCA-GCAGGCCCAGCAGCAGCATAGCAGGCCCTCCAACAACCAGGCCCAGCGTGCGGCTTCG
1 CACCCAGGCAGCCCCAGCAGCAGCATAGCAGGCCCTCCAACAACCAGGCCCAGCGTGCAGCTGCC
31766567 AGCAGCCCAG
66 AGCAGCCCAG
* * * *
31766577 CACCCAGGCAGCCCCAGCAGCAGCATAGCAGGCCCAT-CAACAGCTAGGCCTAGCGTGTAG-TAG
1 CACCCAGGCAGCCCCAGCAGCAGCATAGCAGGCCC-TCCAACAACCAGGCCCAGCGTGCAGCT-G
*
31766640 CCAGCAGGCCAG
64 CCAGCAGCCCAG
*
31766652 CATCCAGGCCCAGCGCCCAGCAG
1 CACCCAGG--CAGC-CCCAGCAG
31766675 GTCCAACTGC
Statistics
Matches: 82, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
74 7 0.09
75 62 0.76
76 1 0.01
77 4 0.05
78 8 0.10
ACGTcount: A:0.25, C:0.40, G:0.27, T:0.08
Consensus pattern (75 bp):
CACCCAGGCAGCCCCAGCAGCAGCATAGCAGGCCCTCCAACAACCAGGCCCAGCGTGCAGCTGCC
AGCAGCCCAG
Found at i:31766711 original size:16 final size:15
Alignment explanation
Indices: 31766686--31766728 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
31766676 TCCAACTGCA
*
31766686 AAAAAAAAAAAGGAAG
1 AAAAAGAAAAAGG-AG
* *
31766702 AAAAGGAAAAAAGAG
1 AAAAAGAAAAAGGAG
31766717 AAAAAGAAAAAG
1 AAAAAGAAAAAG
31766729 AAACAAAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAAGGAG
Found at i:31766736 original size:16 final size:16
Alignment explanation
Indices: 31766686--31766737 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
31766676 TCCAACTGCA
* *
31766686 AAAAAAAAAAAGGAAG
1 AAAAAGAAAAAGAAAG
* *
31766702 AAAAGGAAAAA-AGAG
1 AAAAAGAAAAAGAAAG
*
31766717 AAAAAGAAAAAGAAAC
1 AAAAAGAAAAAGAAAG
31766733 AAAAA
1 AAAAA
31766738 ATGCTCGAAT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAAGAAAG
Found at i:31767082 original size:22 final size:21
Alignment explanation
Indices: 31767039--31767084 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
31767029 AAATAGAAAA
*
31767039 TTAAAAAAAACTCGTGTTTTT
1 TTAAAAAAAACACGTGTTTTT
*
31767060 TTAAAAAATAACACGTTTATTTT
1 TTAAAAAA-AACACGTGT-TTTT
31767083 TT
1 TT
31767085 GTGATTATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 7 0.33
23 6 0.29
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.46
Consensus pattern (21 bp):
TTAAAAAAAACACGTGTTTTT
Found at i:31767166 original size:17 final size:17
Alignment explanation
Indices: 31767144--31767355 Score: 92
Period size: 18 Copynumber: 11.4 Consensus size: 17
31767134 AAGTAATTTA
31767144 TCAAAAATTTCTTGTTT
1 TCAAAAATTTCTTGTTT
*
31767161 TCAAAAAAATTTCGTG-TT
1 TC--AAAAATTTCTTGTTT
31767179 TCAAAAATTT-TTGTGTT
1 TCAAAAATTTCTTGT-TT
* *
31767196 TCAAAAAAATTCTCGTGTT
1 TC-AAAAATTTCTTGT-TT
* *
31767215 TAAAAAATTTTCGTGTTTT
1 TCAAAAA-TTTCTTG-TTT
*
31767234 TCAAAAATTT-TCGTGTT
1 TCAAAAATTTCTTGT-TT
*
31767251 TCAAAATTTTCGTGTTTTTGTGTTT
1 TCAAAAATTTC-------T-TGTTT
* *
31767276 TCAAAAAATTCTCGTGTT
1 TCAAAAATTTCTTGT-TT
31767294 TCAAAAATTT-TTGTGTT
1 TCAAAAATTTCTTGT-TT
31767311 TCAAAAAAATTTCTCATG-TT
1 TC--AAAAATTTCT--TGTTT
*
31767331 TCAAAAATTTTCGTGTTT
1 TCAAAAA-TTTCTTGTTT
31767349 TCAAAAA
1 TCAAAAA
31767356 AATTATGGTA
Statistics
Matches: 150, Mismatches: 19, Indels: 51
0.68 0.09 0.23
Matches are distributed among these distances:
15 2 0.01
16 9 0.06
17 30 0.20
18 45 0.30
19 42 0.28
20 6 0.04
22 2 0.01
25 12 0.08
26 2 0.01
ACGTcount: A:0.32, C:0.11, G:0.10, T:0.47
Consensus pattern (17 bp):
TCAAAAATTTCTTGTTT
Found at i:31767170 original size:19 final size:19
Alignment explanation
Indices: 31767146--31767359 Score: 89
Period size: 19 Copynumber: 11.4 Consensus size: 19
31767136 GTAATTTATC
31767146 AAAAATTTCTTGTTTTCAA
1 AAAAATTTCTTGTTTTCAA
*
31767165 AAAAATTTCGTG-TTTC--
1 AAAAATTTCTTGTTTTCAA
31767181 AAAAATTT-TTGTGTTTCAA
1 AAAAATTTCTTGT-TTTCAA
*
31767200 AAAAA-TTCTCGTGTTT-AA
1 AAAAATTTCTTGT-TTTCAA
* *
31767218 AAAATTTTCGTGTTTTTC-A
1 AAAAATTTCTTG-TTTTCAA
* *
31767237 AAAATTTTCGTG-TTTCAA
1 AAAAATTTCTTGTTTTCAA
*** *
31767255 AATTTTCGTGTTTTTGTGTTTTC-A
1 AA-----AAATTTCT-TGTTTTCAA
*
31767279 AAAAA-TTCTCGTGTTTC--
1 AAAAATTTCTTGT-TTTCAA
31767296 AAAAATTT-TTGTGTTTCAA
1 AAAAATTTCTTGT-TTTCAA
31767315 AAAAATTTCTCATG-TTTC-A
1 AAAAATTTCT--TGTTTTCAA
* *
31767334 AAAATTTTCGTGTTTTCAA
1 AAAAATTTCTTGTTTTCAA
31767353 AAAAATT
1 AAAAATT
31767360 ATGGTATTTC
Statistics
Matches: 150, Mismatches: 20, Indels: 50
0.68 0.09 0.23
Matches are distributed among these distances:
15 2 0.01
16 8 0.05
17 25 0.17
18 28 0.19
19 67 0.45
20 6 0.04
22 2 0.01
23 3 0.02
24 5 0.03
25 4 0.03
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (19 bp):
AAAAATTTCTTGTTTTCAA
Found at i:31767203 original size:36 final size:36
Alignment explanation
Indices: 31767144--31767406 Score: 234
Period size: 36 Copynumber: 7.1 Consensus size: 36
31767134 AAGTAATTTA
31767144 TCAAAAATTTCTTGT-TTTCAAAAAAATT-TCGTGTT
1 TCAAAAATTT-TTGTGTTTCAAAAAAATTCTCGTGTT
31767179 TCAAAAATTTTTGTGTTTCAAAAAAATTCTCGTGTT
1 TCAAAAATTTTTGTGTTTCAAAAAAATTCTCGTGTT
* * *** *
31767215 TAAAAAATTTTCGTGTTTTTCAAAAATTTTCGTGTT
1 TCAAAAATTTTTGTGTTTCAAAAAAATTCTCGTGTT
*
31767251 TCAAAATTTTCGTGTTTTTGTGTTTTC-AAAAAATTCTCGTGTT
1 TCAAAA-------ATTTTTGTG-TTTCAAAAAAATTCTCGTGTT
*
31767294 TCAAAAATTTTTGTGTTTCAAAAAAATTTCTCATGTT
1 TCAAAAATTTTTGTGTTTCAAAAAAA-TTCTCGTGTT
* * * *
31767331 TCAAAAATTTTCGTGTTTTCAAAAAAATTATGGTATT
1 TCAAAAATTTTTGTG-TTTCAAAAAAATTCTCGTGTT
*
31767368 TC-AAAATTCTCTTGT-TTT-AAAACAAA-ACTCGTGTT
1 TCAAAAATT-T-TTGTGTTTCAAAA-AAATTCTCGTGTT
31767403 TCAA
1 TCAA
31767407 TCGAATCACG
Statistics
Matches: 187, Mismatches: 24, Indels: 33
0.77 0.10 0.14
Matches are distributed among these distances:
34 4 0.02
35 38 0.20
36 69 0.37
37 32 0.17
38 14 0.07
43 27 0.14
44 3 0.02
ACGTcount: A:0.33, C:0.11, G:0.10, T:0.46
Consensus pattern (36 bp):
TCAAAAATTTTTGTGTTTCAAAAAAATTCTCGTGTT
Found at i:31767274 original size:79 final size:81
Alignment explanation
Indices: 31767186--31767349 Score: 244
Period size: 79 Copynumber: 2.0 Consensus size: 81
31767176 GTTTCAAAAA
*** *
31767186 TTTTTGTG-TTTCAAAAAAATTCTCGTGTTTAAAAAATTTTCGTGTTTTTCAAAAATTT-TCGTG
1 TTTTTGTGTTTTC-AAAAAATTCTCGTGTTTAAAAAATTTTCGTGTTTCAAAAAAATTTCTCATG
31767249 TTTC-AAAATTTTCGTG
65 TTTCAAAAATTTTCGTG
* *
31767265 TTTTTGTGTTTTCAAAAAATTCTCGTGTTTCAAAAATTTTTGTGTTTCAAAAAAATTTCTCATGT
1 TTTTTGTGTTTTCAAAAAATTCTCGTGTTTAAAAAATTTTCGTGTTTCAAAAAAATTTCTCATGT
31767330 TTCAAAAATTTTCGTG
66 TTCAAAAATTTTCGTG
31767346 TTTT
1 TTTT
31767350 CAAAAAAATT
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
79 48 0.63
80 12 0.16
81 16 0.21
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (81 bp):
TTTTTGTGTTTTCAAAAAATTCTCGTGTTTAAAAAATTTTCGTGTTTCAAAAAAATTTCTCATGT
TTCAAAAATTTTCGTG
Found at i:31767275 original size:43 final size:44
Alignment explanation
Indices: 31767222--31767311 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 44
31767212 GTTTAAAAAA
*
31767222 TTTTCGTGTTTTTC-AAAAATTTTCGTGTTTC-AAAATTTTCGTG
1 TTTTCGTG-TTTTCAAAAAATTCTCGTGTTTCAAAAATTTTCGTG
* *
31767265 TTTTTGTGTTTTCAAAAAATTCTCGTGTTTCAAAAATTTTTGTG
1 TTTTCGTGTTTTCAAAAAATTCTCGTGTTTCAAAAATTTTCGTG
31767309 TTT
1 TTT
31767312 CAAAAAAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 5 0.12
43 23 0.55
44 14 0.33
ACGTcount: A:0.22, C:0.10, G:0.13, T:0.54
Consensus pattern (44 bp):
TTTTCGTGTTTTCAAAAAATTCTCGTGTTTCAAAAATTTTCGTG
Found at i:31767830 original size:9 final size:9
Alignment explanation
Indices: 31767816--31767841 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
31767806 ACGCGCATTG
31767816 TCAAAATTC
1 TCAAAATTC
31767825 TCAAAATTC
1 TCAAAATTC
31767834 TCAAAATT
1 TCAAAATT
31767842 TCTTGTTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (9 bp):
TCAAAATTC
Found at i:31777283 original size:75 final size:75
Alignment explanation
Indices: 31777159--31777854 Score: 880
Period size: 75 Copynumber: 9.2 Consensus size: 75
31777149 CATATTTTTC
* * **
31777159 AATTTCTGTTTTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCCAGTCACATACC
1 AATTTCTGTTTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATACC
*
31777224 GATGTATCTTT
65 GAGGTATCTTT
* *
31777235 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGCA-TTGAGCCTCAGGTCACATACC
1 AATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTG-AGTTGAGCCTCGGGTCACATACC
*
31777299 GAGGTATCATT
65 GAGGTATCTTT
* * *
31777310 AATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACAAACCG
1 AATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCG
31777375 AGGTATCTTT
66 AGGTATCTTT
* * *
31777385 AATTTCTGTCTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACATGCCG
1 AATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCG
31777450 AGGTATCTTT
66 AGGTATCTTT
* * * * * * * *
31777460 AATTTCTATTTTTCAAAAATCAACTTATAATGCGATAAGTGAGTTGAGCCTTGGGCCGCAAACCG
1 AATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCG
31777525 AGGTAT-TTT
66 AGGTATCTTT
* * *
31777534 CAATTTCTGTTTTTCAAAAAAATCAAATCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATG
1 -AATTTCTGTTTTTC--AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATA
31777599 CCGAGGTATCTTT
63 CCGAGGTATCTTT
* * ** *
31777612 AATTTCTGTTTTTGAAAAATCAACTCATAATGTGAGAGGTGAGTTGAGCCTCGGGTCATGTGCCG
1 AATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCG
*
31777677 AGTTAT-TTT
66 AGGTATCTTT
* * * * *
31777686 AAATTTCTATTTTTTTAAAAATCGACTCATAATGCGAGACGTGAGTTGAGCCTCGGGTCACACAC
1 -AATTTCT-GTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATAC
31777751 CGAGGTAT-TTT
64 CGAGGTATCTTT
* * * * ** *
31777762 CAATTTATGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAACCTCAGGTCACGCACT
1 -AATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATACC
31777827 GAGGTAT-TTT
65 GAGGTATCTTT
*
31777837 CAATTTCTATTTTTCAAA
1 -AATTTCTGTTTTTCAAA
31777855 TAAGAATAAT
Statistics
Matches: 545, Mismatches: 67, Indels: 17
0.87 0.11 0.03
Matches are distributed among these distances:
74 7 0.01
75 397 0.73
76 78 0.14
77 60 0.11
78 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (75 bp):
AATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCG
AGGTATCTTT
Found at i:31778203 original size:30 final size:30
Alignment explanation
Indices: 31778167--31778243 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 30
31778157 AAAAAAATAT
31778167 AAATTACATTTT-AGCCCTTAAACTTTTCAA
1 AAATTACATTTTGA-CCCTTAAACTTTTCAA
* *
31778197 AAATTACATTTTGACCCTTAAATTTTTTC-T
1 AAATTACATTTTGACCCTTAAA-CTTTTCAA
*
31778227 AAATTACATCTTGACCC
1 AAATTACATTTTGACCC
31778244 CTAATATTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
30 36 0.86
31 6 0.14
ACGTcount: A:0.34, C:0.21, G:0.04, T:0.42
Consensus pattern (30 bp):
AAATTACATTTTGACCCTTAAACTTTTCAA
Found at i:31778263 original size:29 final size:30
Alignment explanation
Indices: 31778197--31778264 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 30
31778187 AACTTTTCAA
* * *
31778197 AAATTACATTTTGACCCTTAAATTTTTTCT
1 AAATTACATCTTGACCCCTAAATATTTTCT
*
31778227 AAATTACATCTTGACCCCT-AATATTTTGT
1 AAATTACATCTTGACCCCTAAATATTTTCT
31778256 AAATTACAT
1 AAATTACAT
31778265 TCAGGCCCCT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 17 0.50
30 17 0.50
ACGTcount: A:0.34, C:0.18, G:0.04, T:0.44
Consensus pattern (30 bp):
AAATTACATCTTGACCCCTAAATATTTTCT
Found at i:31778899 original size:29 final size:29
Alignment explanation
Indices: 31778867--31778940 Score: 71
Period size: 30 Copynumber: 2.6 Consensus size: 29
31778857 AGAAAAAAAG
31778867 AAAAAGGAAAGGAGAGAAAGAAAAGAGAAA
1 AAAAAGGAAAGGAGAGAAAGAAAAGAG-AA
* * * *
31778897 AAAAAAGAAAAGAG-GAAGGAAGAGAG-A
1 AAAAAGGAAAGGAGAGAAAGAAAAGAGAA
* *
31778924 AAAGAGGAGAGGAGAGA
1 AAAAAGGAAAGGAGAGA
31778941 CCGGCCATCG
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
27 11 0.31
28 2 0.06
29 10 0.29
30 12 0.34
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (29 bp):
AAAAAGGAAAGGAGAGAAAGAAAAGAGAA
Found at i:31778900 original size:37 final size:36
Alignment explanation
Indices: 31778842--31778929 Score: 108
Period size: 37 Copynumber: 2.4 Consensus size: 36
31778832 TGTCAAAATA
* *
31778842 GAAGAAA-AAGAGAGGAGAAAAAAAGAAAA-AGGAAAG
1 GAAGAAAGAAAAGA-GAAAAAAAAAGAAAAGAGG-AAG
31778878 GAGAGAAAGAAAAGAGAAAAAAAAAGAAAAGAGGAAG
1 GA-AGAAAGAAAAGAGAAAAAAAAAGAAAAGAGGAAG
*
31778915 GAAGAGAGAAAAGAG
1 GAAGAAAGAAAAGAG
31778930 GAGAGGAGAG
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
36 14 0.30
37 24 0.52
38 8 0.17
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (36 bp):
GAAGAAAGAAAAGAGAAAAAAAAAGAAAAGAGGAAG
Found at i:31778926 original size:19 final size:19
Alignment explanation
Indices: 31778902--31778940 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
31778892 AGAAAAAAAA
31778902 AGAAAAGAGGA-AGGAAGAG
1 AGAAAAGAGGAGAGG-AGAG
31778921 AGAAAAGAGGAGAGGAGAG
1 AGAAAAGAGGAGAGGAGAG
31778940 A
1 A
31778941 CCGGCCATCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (19 bp):
AGAAAAGAGGAGAGGAGAG
Found at i:31779389 original size:8 final size:8
Alignment explanation
Indices: 31779371--31779410 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
31779361 CCAACTACAA
31779371 AAAAAAGAG
1 AAAAAA-AG
31779380 AAAAAAAG
1 AAAAAAAG
*
31779388 AAGAAAAG
1 AAAAAAAG
*
31779396 GAAAAAAG
1 AAAAAAAG
31779404 AAAAAAA
1 AAAAAAA
31779411 AACAAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
8 21 0.78
9 6 0.22
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:31779409 original size:26 final size:26
Alignment explanation
Indices: 31779371--31779421 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
31779361 CCAACTACAA
* * *
31779371 AAAAAAGAGAAAAAAAGAAGAAAAGG
1 AAAAAAGAAAAAAAAACAAAAAAAGG
31779397 AAAAAAGAAAAAAAAACAAAAAAAG
1 AAAAAAGAAAAAAAAACAAAAAAAG
31779422 CCCCGAATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (26 bp):
AAAAAAGAAAAAAAAACAAAAAAAGG
Found at i:31780038 original size:126 final size:126
Alignment explanation
Indices: 31779851--31780204 Score: 591
Period size: 126 Copynumber: 2.8 Consensus size: 126
31779841 TAATTTCGAG
* * * * * *
31779851 TTGACGTTTCTGATCAAATAGTATAAAATCACTTCTAGCAGGATGCTATTTGAGAATAATTTATG
1 TTGACGTTTTTGAGCAAATAGTATAAAATCGCTTGTAGCAGGATGCTATTTGAGAAGAATTTGTG
* *
31779916 AAATCGCGCCCTCGTGGACGCGCTTTTGCTATAGTAGGTCACGAAAGAAATAATTATTTTT
66 ATATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGAAAGAAATAATTATTTTT
*
31779977 TTGACGTTTTTTAGCAAATAGTATAAAATCGCTTGTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTTTGAGCAAATAGTATAAAATCGCTTGTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * *
31780042 ATATCGCGCTCTCGTGGACGCGCTTTTGCTACAGTAGGTCCCGAAAGGAATAATTATTTTT
66 ATATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGAAAGAAATAATTATTTTT
31780103 TTGACGTTTTTGAGCAAATAGTATAAAATCGCTTGTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTTTGAGCAAATAGTATAAAATCGCTTGTAGCAGGATGCTATTTGAGAAGAATTTGTG
*
31780168 ATATCGCGCCCTCGTGGACGCGCTTTTGCTGCAGTAG
66 ATATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
31780205 CATGTTTGGG
Statistics
Matches: 213, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
126 213 1.00
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.34
Consensus pattern (126 bp):
TTGACGTTTTTGAGCAAATAGTATAAAATCGCTTGTAGCAGGATGCTATTTGAGAAGAATTTGTG
ATATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGAAAGAAATAATTATTTTT
Found at i:31780973 original size:33 final size:32
Alignment explanation
Indices: 31780927--31781069 Score: 195
Period size: 33 Copynumber: 4.4 Consensus size: 32
31780917 AATTAGGTTA
31780927 AGGG-TTTTAATTAAATTAGGATTAGGGTTTTT
1 AGGGTTTTTAATTAAATTAGG-TTAGGGTTTTT
31780959 AGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGTT
1 AGGGTTTTTAATTAAATTAGGTTAGGGTTT---TT
31780994 AGGGTTTTTAATTAAATTAGGATTAGGGTTTTT
1 AGGGTTTTTAATTAAATTAGG-TTAGGGTTTTT
* *
31781027 AGTGTTTTAAATTAAATTAGGTTAGGG---TT
1 AGGGTTTTTAATTAAATTAGGTTAGGGTTTTT
31781056 AGGGTTTTTAATTA
1 AGGGTTTTTAATTA
31781070 GGGTTTTTAA
Statistics
Matches: 102, Mismatches: 4, Indels: 13
0.86 0.03 0.11
Matches are distributed among these distances:
29 14 0.14
32 19 0.19
33 37 0.36
35 23 0.23
36 9 0.09
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (32 bp):
AGGGTTTTTAATTAAATTAGGTTAGGGTTTTT
Found at i:31780977 original size:38 final size:38
Alignment explanation
Indices: 31780935--31781065 Score: 118
Period size: 38 Copynumber: 3.7 Consensus size: 38
31780925 TAAGGGTTTT
31780935 AATTAAATTAGGATTAGGGTTTTTAGGGTTTTTAATTA
1 AATTAAATTAGGATTAGGGTTTTTAGGGTTTTTAATTA
** *
31780973 AATTAGGTTAGGGTTTA-GG---TTAGGG--TTT--TT-
1 AATTAAATTA-GGATTAGGGTTTTTAGGGTTTTTAATTA
* *
31781003 AATTAAATTAGGATTAGGGTTTTTAGTGTTTTAAATTA
1 AATTAAATTAGGATTAGGGTTTTTAGGGTTTTTAATTA
** *
31781041 AATTAGGTTAGGGTTAGGGTTTTTA
1 AATTAAATTAGGATTAGGGTTTTTA
31781066 ATTAGGGTTT
Statistics
Matches: 72, Mismatches: 11, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
29 5 0.07
30 10 0.14
31 2 0.03
33 8 0.11
35 8 0.11
37 2 0.03
38 32 0.44
39 5 0.07
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (38 bp):
AATTAAATTAGGATTAGGGTTTTTAGGGTTTTTAATTA
Found at i:31780992 original size:12 final size:12
Alignment explanation
Indices: 31780975--31781000 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
31780965 TTTAATTAAA
31780975 TTAGGTTAGGGT
1 TTAGGTTAGGGT
31780987 TTAGGTTAGGGT
1 TTAGGTTAGGGT
31780999 TT
1 TT
31781001 TTAATTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.46
Consensus pattern (12 bp):
TTAGGTTAGGGT
Found at i:31781003 original size:68 final size:68
Alignment explanation
Indices: 31780919--31781055 Score: 240
Period size: 68 Copynumber: 2.0 Consensus size: 68
31780909 CTACATCCAA
*
31780919 TTAGGTTAAGGGTTTTAATTAAATTAGGATTAGGGTTTTTAGGGTTTTTAATTAAATTAGGTTAG
1 TTAGGTTAAGGGTTTTAATTAAATTAGGATTAGGGTTTTTAGGGTTTTAAATTAAATTAGGTTAG
31780984 GGT
66 GGT
*
31780987 TTAGGTT-AGGGTTTTTAATTAAATTAGGATTAGGGTTTTTAGTGTTTTAAATTAAATTAGGTTA
1 TTAGGTTAAGGG-TTTTAATTAAATTAGGATTAGGGTTTTTAGGGTTTTAAATTAAATTAGGTTA
31781051 GGGT
65 GGGT
31781055 T
1 T
31781056 AGGGTTTTTA
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
67 4 0.06
68 62 0.94
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.47
Consensus pattern (68 bp):
TTAGGTTAAGGGTTTTAATTAAATTAGGATTAGGGTTTTTAGGGTTTTAAATTAAATTAGGTTAG
GGT
Found at i:31781072 original size:13 final size:13
Alignment explanation
Indices: 31781054--31781095 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
31781044 TAGGTTAGGG
31781054 TTAGGGTTTTTAA
1 TTAGGGTTTTTAA
31781067 TTAGGGTTTTTAA
1 TTAGGGTTTTTAA
*
31781080 TTAGGGTTTTGAA
1 TTAGGGTTTTTAA
31781093 TTA
1 TTA
31781096 ATTTAGGTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (13 bp):
TTAGGGTTTTTAA
Found at i:31781124 original size:61 final size:61
Alignment explanation
Indices: 31781046--31781252 Score: 314
Period size: 61 Copynumber: 3.4 Consensus size: 61
31781036 AATTAAATTA
31781046 GGTTAGGGTTAGGGTTTTTAATTAGGGTTTTTAATTAGGGTTTTGAATTAATTTAGGTTAG
1 GGTTAGGGTTAGGGTTTTTAATTAGGGTTTTTAATTAGGGTTTTGAATTAATTTAGGTTAG
* *
31781107 GGTTAGGGTTAGGGTTTTTAATTAGGGTATTTAATTAGGTTTTTGAATTAATTTAGGTTAG
1 GGTTAGGGTTAGGGTTTTTAATTAGGGTTTTTAATTAGGGTTTTGAATTAATTTAGGTTAG
* *
31781168 GGTTAGGGTTAGGG----TAAGGTTAGGGTTTTTAATTAGGGTTTTGAATTAGGGTTTAGGTTAA
1 GGTTAGGGTTAGGGTTTTTAA--TTAGGGTTTTTAATTAGGGTTTTGAATTA--ATTTAGGTTAG
31781229 GGTTAGGGTTAGGGTTTTTAATTA
1 GGTTAGGGTTAGGGTTTTTAATTA
31781253 AGATTTTGAA
Statistics
Matches: 132, Mismatches: 6, Indels: 14
0.87 0.04 0.09
Matches are distributed among these distances:
57 3 0.02
59 27 0.20
61 96 0.73
63 3 0.02
65 3 0.02
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.45
Consensus pattern (61 bp):
GGTTAGGGTTAGGGTTTTTAATTAGGGTTTTTAATTAGGGTTTTGAATTAATTTAGGTTAG
Found at i:31781133 original size:13 final size:13
Alignment explanation
Indices: 31781115--31781156 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
31781105 AGGGTTAGGG
31781115 TTAGGGTTTTTAA
1 TTAGGGTTTTTAA
*
31781128 TTAGGGTATTTAA
1 TTAGGGTTTTTAA
31781141 TTA-GGTTTTTGAA
1 TTAGGGTTTTT-AA
31781154 TTA
1 TTA
31781157 ATTTAGGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 6 0.23
13 20 0.77
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.52
Consensus pattern (13 bp):
TTAGGGTTTTTAA
Found at i:31781173 original size:6 final size:6
Alignment explanation
Indices: 31781162--31781194 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
31781152 AATTAATTTA
*
31781162 GGTTAG GGTTAG GGTTAG GG-TAA GGTTAG GGTT
1 GGTTAG GGTTAG GGTTAG GGTTAG GGTTAG GGTT
31781195 TTTAATTAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.18, C:0.00, G:0.48, T:0.33
Consensus pattern (6 bp):
GGTTAG
Found at i:31781179 original size:12 final size:12
Alignment explanation
Indices: 31781161--31781194 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
31781151 GAATTAATTT
31781161 AGGTTAGGGTTA
1 AGGTTAGGGTTA
*
31781173 GGGTTAGGG-TA
1 AGGTTAGGGTTA
31781184 AGGTTAGGGTT
1 AGGTTAGGGTT
31781195 TTTAATTAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.21, C:0.00, G:0.47, T:0.32
Consensus pattern (12 bp):
AGGTTAGGGTTA
Found at i:31781205 original size:13 final size:13
Alignment explanation
Indices: 31781187--31781221 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
31781177 TAGGGTAAGG
*
31781187 TTAGGGTTTTTAA
1 TTAGGGTTTTGAA
31781200 TTAGGGTTTTGAA
1 TTAGGGTTTTGAA
31781213 TTAGGGTTT
1 TTAGGGTTT
31781222 AGGTTAAGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.51
Consensus pattern (13 bp):
TTAGGGTTTTGAA
Found at i:31781290 original size:48 final size:48
Alignment explanation
Indices: 31781185--31781334 Score: 246
Period size: 48 Copynumber: 3.1 Consensus size: 48
31781175 GTTAGGGTAA
* *
31781185 GGTTAGGGTTTTTAATTAGGGTTTTGAATTAGGGTTTAGGTTAAGGTTAG
1 GGTTAGGGTTTTTAATTAGGGTTTTGAATTA--ATTTAGGTTATGGTTAG
* *
31781235 GGTTAGGGTTTTTAATTAAGATTTTGAATTAATTTAGGTTATGGTTAG
1 GGTTAGGGTTTTTAATTAGGGTTTTGAATTAATTTAGGTTATGGTTAG
31781283 GGTTAGGGTTTTTAATTAGGGTTTTGAATTAATTTAGGTTATGGTTAG
1 GGTTAGGGTTTTTAATTAGGGTTTTGAATTAATTTAGGTTATGGTTAG
31781331 GGTT
1 GGTT
31781335 TTTAATTAGG
Statistics
Matches: 94, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
48 65 0.69
50 29 0.31
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (48 bp):
GGTTAGGGTTTTTAATTAGGGTTTTGAATTAATTTAGGTTATGGTTAG
Found at i:31781323 original size:42 final size:44
Alignment explanation
Indices: 31781175--31781355 Score: 188
Period size: 48 Copynumber: 3.9 Consensus size: 44
31781165 TAGGGTTAGG
* * *
31781175 GTTAGGGTAAGGTTAGGGTTTTTAATTAGGGTTTTGAATTAGGGTTT
1 GTTAGGTTAGGGTTAGGGTTTTTAATTAGGGTTTTGAATTA---ATT
* *
31781222 AGGTTAAGGTTAGGGTTAGGGTTTTTAATTAAGATTTTGAATTAATTT
1 --GTT-AGGTTAGGGTTAGGGTTTTTAATTAGGGTTTTGAATTAA-TT
31781270 AGGTTATGGTTAGGGTTAGGGTTTTTAATTAGGGTTTTGAATTAA-T
1 --GTTA-GGTTAGGGTTAGGGTTTTTAATTAGGGTTTTGAATTAATT
*
31781316 -TTAGGTTATGGTTAGGGTTTTTAATTAGGGTATTT-AATTA
1 GTTAGGTTAGGGTTAGGGTTTTTAATTAGGGT-TTTGAATTA
31781356 GGTTAGAGTT
Statistics
Matches: 120, Mismatches: 8, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
42 32 0.27
43 6 0.05
46 1 0.01
47 1 0.01
48 43 0.36
49 3 0.03
50 34 0.28
ACGTcount: A:0.25, C:0.00, G:0.29, T:0.46
Consensus pattern (44 bp):
GTTAGGTTAGGGTTAGGGTTTTTAATTAGGGTTTTGAATTAATT
Found at i:31781345 original size:13 final size:13
Alignment explanation
Indices: 31781327--31781357 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
31781317 TAGGTTATGG
*
31781327 TTAGGGTTTTTAA
1 TTAGGGTATTTAA
31781340 TTAGGGTATTTAA
1 TTAGGGTATTTAA
31781353 TTAGG
1 TTAGG
31781358 TTAGAGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (13 bp):
TTAGGGTATTTAA
Found at i:31781399 original size:25 final size:25
Alignment explanation
Indices: 31781365--31781476 Score: 103
Period size: 25 Copynumber: 4.7 Consensus size: 25
31781355 AGGTTAGAGT
31781365 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
31781390 TTTTATTACATCAAAT-AA-TATC-A
1 TTTTATTACATCAAATAAACT-TCTA
** * * ** *
31781413 --AAATAAC-TCGAA-AATTTTTTA
1 TTTTATTACATCAAATAAACTTCTA
31781434 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
31781459 TTTTATTACATCAAATAA
1 TTTTATTACATCAAATAA
31781477 TATTTAAATA
Statistics
Matches: 66, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
20 6 0.09
21 6 0.09
23 6 0.09
24 8 0.12
25 40 0.61
ACGTcount: A:0.43, C:0.13, G:0.01, T:0.43
Consensus pattern (25 bp):
TTTTATTACATCAAATAAACTTCTA
Found at i:31781901 original size:18 final size:18
Alignment explanation
Indices: 31781878--31781912 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
31781868 TGGAAAAGGA
*
31781878 TACATATAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
31781896 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
31781913 AAACGCACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:31782574 original size:7 final size:7
Alignment explanation
Indices: 31782564--31782588 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
31782554 TTATATACAT
31782564 AATACTA
1 AATACTA
31782571 AATACTA
1 AATACTA
31782578 AATACTA
1 AATACTA
31782585 AATA
1 AATA
31782589 TCAATCGGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:31783776 original size:51 final size:51
Alignment explanation
Indices: 31783703--31783821 Score: 152
Period size: 51 Copynumber: 2.4 Consensus size: 51
31783693 TTTTAAAAAC
* * * * *
31783703 GGAAATTTAGAGAAAATAGAAATTAAATATG-GATTTGAAATAATTTTAGAA
1 GGAAATTGAGAGGAAATTGAAATGAAATATGAG-TTTGAAAGAATTTTAGAA
**
31783754 GGAAATTGAGAGGAAATTGAAATGAAATATGAGTTTGAGGGAATTTTAGAA
1 GGAAATTGAGAGGAAATTGAAATGAAATATGAGTTTGAAAGAATTTTAGAA
31783805 GGAAATTGAGA-GAAATT
1 GGAAATTGAGAGGAAATT
31783822 TGGAAGGAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
50 6 0.10
51 53 0.88
52 1 0.02
ACGTcount: A:0.47, C:0.00, G:0.24, T:0.29
Consensus pattern (51 bp):
GGAAATTGAGAGGAAATTGAAATGAAATATGAGTTTGAAAGAATTTTAGAA
Found at i:31783827 original size:22 final size:22
Alignment explanation
Indices: 31783788--31783849 Score: 79
Period size: 22 Copynumber: 2.7 Consensus size: 22
31783778 AAATATGAGT
* *
31783788 TTGAGGGAATTTTAGAAGGAAA
1 TTGAGAGAAATTTAGAAGGAAA
*
31783810 TTGAGAGAAATTTGGAAGGAAA
1 TTGAGAGAAATTTAGAAGGAAA
31783832 TTGAGAGGAAATATTAGA
1 TTGAGA-GAAAT-TTAGA
31783850 GAAGATTTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 25 0.74
23 5 0.15
24 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.26
Consensus pattern (22 bp):
TTGAGAGAAATTTAGAAGGAAA
Found at i:31783850 original size:12 final size:11
Alignment explanation
Indices: 31783753--31783843 Score: 51
Period size: 11 Copynumber: 7.6 Consensus size: 11
31783743 TAATTTTAGA
31783753 AGGAAATTGAG
1 AGGAAATTGAG
*
31783764 AGGAAATTGAA
1 AGGAAATTGAG
*
31783775 ATGAAATATGAGTTTG
1 AGGAAAT-TGA----G
* *
31783791 AGGGAATTTTAG
1 A-GGAAATTGAG
31783803 AAGGAAATTGAG
1 -AGGAAATTGAG
31783815 A-GAAATTTG-G
1 AGGAAA-TTGAG
31783825 AAGGAAATTGAG
1 -AGGAAATTGAG
31783837 AGGAAAT
1 AGGAAAT
31783844 ATTAGAGAAG
Statistics
Matches: 61, Mismatches: 8, Indels: 22
0.67 0.09 0.24
Matches are distributed among these distances:
10 5 0.08
11 31 0.51
12 17 0.28
13 1 0.02
16 3 0.05
17 4 0.07
ACGTcount: A:0.45, C:0.00, G:0.31, T:0.24
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:31784537 original size:36 final size:37
Alignment explanation
Indices: 31784490--31784625 Score: 161
Period size: 36 Copynumber: 3.8 Consensus size: 37
31784480 CAAAATTTAT
* *
31784490 TGTTTTC-AAAAAATTTTCGTGTTTCAAAAATTTTAG
1 TGTTTTCAAAAAAATTCTCGTGTTTCAAAAATTTTCG
* * *
31784526 TG-TTTCAAAAAAATTCTCGTGTTTAAAAAATATCCG
1 TGTTTTCAAAAAAATTCTCGTGTTTCAAAAATTTTCG
* * * *
31784562 TGTTTTCAAAAAAATTATGGTATTTC-AAAATTCTCG
1 TGTTTTCAAAAAAATTCTCGTGTTTCAAAAATTTTCG
*
31784598 TGTTTTAAAAAAAATTCTCGTGTTTCAA
1 TGTTTTCAAAAAAATTCTCGTGTTTCAA
31784626 TTGGATCACG
Statistics
Matches: 81, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
35 4 0.05
36 57 0.70
37 20 0.25
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (37 bp):
TGTTTTCAAAAAAATTCTCGTGTTTCAAAAATTTTCG
Found at i:31784553 original size:17 final size:18
Alignment explanation
Indices: 31784497--31784622 Score: 91
Period size: 17 Copynumber: 6.9 Consensus size: 18
31784487 TATTGTTTTC
*
31784497 AAAAAATTTTCGTGTTT-
1 AAAAAATTCTCGTGTTTA
* * *
31784514 CAAAAATTTTAGTGTTTCA
1 AAAAAATTCTCGTGTTT-A
31784533 AAAAAATTCTCGTGTTT-
1 AAAAAATTCTCGTGTTTA
31784550 AAAAAATATC-CGTGTTTTCA
1 AAAAAAT-TCTCGTG-TTT-A
* * *
31784570 AAAAAATTATGGTATTT-
1 AAAAAATTCTCGTGTTTA
*
31784587 -CAAAATTCTCGTGTTTTAA
1 AAAAAATTCTCGTG-TTT-A
31784606 AAAAAATTCTCGTGTTT
1 AAAAAATTCTCGTGTTT
31784623 CAATTGGATC
Statistics
Matches: 85, Mismatches: 13, Indels: 20
0.72 0.11 0.17
Matches are distributed among these distances:
16 9 0.11
17 29 0.34
18 5 0.06
19 21 0.25
20 21 0.25
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.41
Consensus pattern (18 bp):
AAAAAATTCTCGTGTTTA
Found at i:31784555 original size:20 final size:19
Alignment explanation
Indices: 31784497--31784622 Score: 86
Period size: 19 Copynumber: 6.9 Consensus size: 19
31784487 TATTGTTTTC
*
31784497 AAAAAATTTTCGTGTTT--
1 AAAAAATTCTCGTGTTTAA
* * * *
31784514 CAAAAATTTTAGTGTTTCA
1 AAAAAATTCTCGTGTTTAA
31784533 AAAAAATTCTCGTGTTTAA
1 AAAAAATTCTCGTGTTTAA
* *
31784552 AAAATA-TC-CGTGTTTTCA
1 AAAAAATTCTCGTG-TTTAA
* * *
31784570 AAAAAATTATGGTATTT--
1 AAAAAATTCTCGTGTTTAA
*
31784587 -CAAAATTCTCGTGTTTTAA
1 AAAAAATTCTCGTG-TTTAA
31784606 AAAAAATTCTCGTGTTT
1 AAAAAATTCTCGTGTTT
31784623 CAATTGGATC
Statistics
Matches: 83, Mismatches: 17, Indels: 16
0.72 0.15 0.14
Matches are distributed among these distances:
16 9 0.11
17 22 0.27
18 11 0.13
19 27 0.33
20 14 0.17
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.41
Consensus pattern (19 bp):
AAAAAATTCTCGTGTTTAA
Found at i:31787661 original size:7 final size:7
Alignment explanation
Indices: 31787645--31787692 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
31787635 ACTAATTAAT
*
31787645 CTAAAAC
1 CTAAACC
31787652 CTAAACC
1 CTAAACC
31787659 CTAAACC
1 CTAAACC
*
31787666 CTTAACC
1 CTAAACC
* *
31787673 CTTATCC
1 CTAAACC
31787680 TCTAAACC
1 -CTAAACC
31787688 CTAAA
1 CTAAA
31787693 TTATAAAACA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
7 30 0.86
8 5 0.14
ACGTcount: A:0.40, C:0.38, G:0.00, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:31787720 original size:7 final size:7
Alignment explanation
Indices: 31787710--31787744 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
31787700 ACATAAATCT
31787710 CTAACCC
1 CTAACCC
31787717 CTAACCC
1 CTAACCC
*
31787724 CTAACCT
1 CTAACCC
*
31787731 TTAACCC
1 CTAACCC
31787738 CTAACCC
1 CTAACCC
31787745 TTAAACCTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.29, C:0.51, G:0.00, T:0.20
Consensus pattern (7 bp):
CTAACCC
Found at i:31787748 original size:14 final size:14
Alignment explanation
Indices: 31787710--31787748 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
31787700 ACATAAATCT
*
31787710 CTAACCCCTAACCC
1 CTAACCCTTAACCC
*
31787724 CTAACCTTTAACCC
1 CTAACCCTTAACCC
31787738 CTAACCCTTAA
1 CTAACCCTTAA
31787749 ACCTTAAACC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.31, C:0.46, G:0.00, T:0.23
Consensus pattern (14 bp):
CTAACCCTTAACCC
Found at i:31787769 original size:21 final size:22
Alignment explanation
Indices: 31787712--31787777 Score: 82
Period size: 21 Copynumber: 3.1 Consensus size: 22
31787702 ATAAATCTCT
* *
31787712 AACCCCTAACCCCT-AACCTTT
1 AACCCCTAACCCTTAAACCTTA
31787733 AACCCCTAACCCTTAAACCTTA
1 AACCCCTAACCCTTAAACCTTA
* *
31787755 AACCCC-AACCTTTAAACCATA
1 AACCCCTAACCCTTAAACCTTA
31787776 AA
1 AA
31787778 TCATAAACCA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 28 0.70
22 12 0.30
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.21
Consensus pattern (22 bp):
AACCCCTAACCCTTAAACCTTA
Found at i:31788839 original size:40 final size:41
Alignment explanation
Indices: 31788795--31788902 Score: 128
Period size: 42 Copynumber: 2.6 Consensus size: 41
31788785 TTAAATCCTT
* * * *
31788795 GAGCATTAGTGGCGCTTT-TTAGAAAATGTCGCTAAAAATA
1 GAGCATTAGCGGCGCTTTCTCAAAAAATGCCGCTAAAAATA
***
31788835 GAGCATTAGCGGCGCTTTCTCAAAAAATGCCGCTAAAGCCA
1 GAGCATTAGCGGCGCTTTCTCAAAAAATGCCGCTAAAAATA
*
31788876 CGAGCATTAGCGGCGCTTCCTCAAAAA
1 -GAGCATTAGCGGCGCTTTCTCAAAAA
31788903 CACTGCTAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 17 0.29
41 16 0.28
42 25 0.43
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.23
Consensus pattern (41 bp):
GAGCATTAGCGGCGCTTTCTCAAAAAATGCCGCTAAAAATA
Found at i:31788902 original size:41 final size:40
Alignment explanation
Indices: 31788835--31789116 Score: 287
Period size: 41 Copynumber: 6.9 Consensus size: 40
31788825 GCTAAAAATA
* *
31788835 GAGCATTAGCGGCGCTTTCTCAAAAAATGCCGCTAAAGCCAC
1 GAGCATTAGCGGCGCTTCCTC-AAAAACGCCGCTAAAGCC-C
* *
31788877 GAGCATTAGCGGCGCTTCCTCAAAAACACTGCTAAAGCCCC
1 GAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAG-CCC
* * * *
31788918 AAGCATTATCAGCGCTTCCTCAAAAATGCCGCTAAAGCCC
1 GAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCC
*
31788958 GAGCATTAGCGGCGCCTCCTCAAAAACGCCGCTAAAGCCCC
1 GAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAG-CCC
* * *
31788999 GAGCATTAGCGGCGCCTCCTCAAAAGCGCCGCTATAGCCC
1 GAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCC
* * * * * **
31789039 TAAGCATTAGCGGTGCTT-TTCTAAAAATGCCGCTAAATCGTT
1 -GAGCATTAGCGGCGCTTCCTC-AAAAACGCCGCTAAAGC-CC
* ** *
31789081 GAGCATTAGTGGCGCTTTATTAAAAACGCCGCTAAA
1 GAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAA
31789117 TCCCCGAAAG
Statistics
Matches: 201, Mismatches: 33, Indels: 13
0.81 0.13 0.05
Matches are distributed among these distances:
40 40 0.20
41 138 0.69
42 23 0.11
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (40 bp):
GAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCC
Found at i:31788981 original size:81 final size:81
Alignment explanation
Indices: 31788836--31789051 Score: 297
Period size: 81 Copynumber: 2.6 Consensus size: 81
31788826 CTAAAAATAG
* *
31788836 AGCATTAGCGGCGCTTTCTCAAAAAATGCCGCTAAAGCCACGAGCATTAGCGGCGCTTCCTCAAA
1 AGCATTAGCGGCGCTTCCTC-AAAAATGCCGCTAAAGCC-CGAGCATTAGCGGCGCCTCCTCAAA
*
31788901 AACACTGCTAAAGCCCCA
64 AACACCGCTAAAGCCCCA
* *
31788919 AGCATTATCAGCGCTTCCTCAAAAATGCCGCTAAAGCCCGAGCATTAGCGGCGCCTCCTCAAAAA
1 AGCATTAGCGGCGCTTCCTCAAAAATGCCGCTAAAGCCCGAGCATTAGCGGCGCCTCCTCAAAAA
* *
31788984 CGCCGCTAAAGCCCCG
66 CACCGCTAAAGCCCCA
* ** * *
31789000 AGCATTAGCGGCGCCTCCTCAAAAGCGCCGCTATAGCCCTAAGCATTAGCGG
1 AGCATTAGCGGCGCTTCCTCAAAAATGCCGCTAAAGCCC-GAGCATTAGCGG
31789052 TGCTTTTCTA
Statistics
Matches: 118, Mismatches: 14, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
81 72 0.61
82 29 0.25
83 17 0.14
ACGTcount: A:0.29, C:0.33, G:0.21, T:0.17
Consensus pattern (81 bp):
AGCATTAGCGGCGCTTCCTCAAAAATGCCGCTAAAGCCCGAGCATTAGCGGCGCCTCCTCAAAAA
CACCGCTAAAGCCCCA
Found at i:31789044 original size:122 final size:123
Alignment explanation
Indices: 31788835--31789123 Score: 357
Period size: 122 Copynumber: 2.3 Consensus size: 123
31788825 GCTAAAAATA
* * *
31788835 GAGCATTAGCGGCGCTTTCTCAAAAAATGCCGCTAAAGCCACGAGCATTAGCGGCGCTTCCTCAA
1 GAGCATTAGCGGCGCTTTCTC-AAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCGCCTCCTCAA
* *
31788900 AAACACTGCTAAAGCCCCAAGCATTATCAGCGCTTC-CTCAAAAATGCCGCTAAAGC-CC
65 AAACACCGCTAAAGCCCCAAGCATTAGCAGCGCTTCTCT-AAAAATGCCGCTAAAGCGCC
* *
31788958 GAGCATTAGCGGCGCCTCCTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCGCCTCCTCAAA
1 GAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCGCCTCCTCAAA
* * * * * * * * **
31789023 AGCGCCGCTATAGCCCTAAGCATTAGCGGTGCTTTTCTAAAAATGCCGCTAAATCGTT
66 AACACCGCTAAAGCCCCAAGCATTAGCAGCGCTTCTCTAAAAATGCCGCTAAAGCGCC
* * * *
31789081 GAGCATTAGTGGCGCTTTATTAAAAACGCCGCTAAATCCCCGA
1 GAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCCGA
31789124 AAGCTCAGAA
Statistics
Matches: 141, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
122 83 0.59
123 58 0.41
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (123 bp):
GAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCGCCTCCTCAAA
AACACCGCTAAAGCCCCAAGCATTAGCAGCGCTTCTCTAAAAATGCCGCTAAAGCGCC
Found at i:31789117 original size:41 final size:41
Alignment explanation
Indices: 31788786--31789118 Score: 142
Period size: 41 Copynumber: 8.1 Consensus size: 41
31788776 TTAATTATTT
* * * *
31788786 TAAATCCTTGAGCATTAGTGGCGCTTTT-TAGAAAATGTCGC
1 TAAATCGTTGAGCATTAGCGGCGCTTTTCTA-AAAACGCCGC
** * * *
31788827 TAAA-AATAGAGCATTAGCGGCGCTTTCTCAAAAAATGCCGC
1 TAAATCGTTGAGCATTAGCGGCGCTTT-TCTAAAAACGCCGC
* *** * * *
31788868 TAAAGCCACGAGCATTAGCGGCGC-TTCCTCAAAAACACTGC
1 TAAATCGTTGAGCATTAGCGGCGCTTTTCT-AAAAACGCCGC
* **** * * * *
31788909 TAAAGCCCCAAGCATTATCAGCGC-TTCCTCAAAAATGCCGC
1 TAAATCGTTGAGCATTAGCGGCGCTTTTCT-AAAAACGCCGC
* ** * *
31788950 TAAAGC-CCGAGCATTAGCGGCGC-CTCCTCAAAAACGCCGC
1 TAAATCGTTGAGCATTAGCGGCGCTTTTCT-AAAAACGCCGC
* *** * * *
31788990 TAAAGCCCCGAGCATTAGCGGCGC-CTCCTCAAAAGCGCCGC
1 TAAATCGTTGAGCATTAGCGGCGCTTTTCT-AAAAACGCCGC
* * ** * * *
31789031 TATAGCCCTAAGCATTAGCGGTGCTTTTCTAAAAATGCCGC
1 TAAATCGTTGAGCATTAGCGGCGCTTTTCTAAAAACGCCGC
*
31789072 TAAATCGTTGAGCATTAGTGGCGCTTTAT-TAAAAACGCCGC
1 TAAATCGTTGAGCATTAGCGGCGCTTT-TCTAAAAACGCCGC
31789113 TAAATC
1 TAAATC
31789119 CCCGAAAGCT
Statistics
Matches: 241, Mismatches: 44, Indels: 14
0.81 0.15 0.05
Matches are distributed among these distances:
40 54 0.22
41 167 0.69
42 20 0.08
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (41 bp):
TAAATCGTTGAGCATTAGCGGCGCTTTTCTAAAAACGCCGC
Done.