Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 89 of 208
Found at i:30896411 original size:6 final size:6
Alignment explanation
Indices: 30896400--30896440 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
30896390 TAAATTATAT
* * *
30896400 TATTAG TATTAG TATTAG TATTAG AATTAT TATTAA TATTA
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTA
30896441 TTGTTATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (6 bp):
TATTAG
Found at i:30898192 original size:12 final size:12
Alignment explanation
Indices: 30898175--30898205 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
30898165 CCTCACACGT
30898175 CCGTGTGCTAGG
1 CCGTGTGCTAGG
30898187 CCGTGTGCTAGG
1 CCGTGTGCTAGG
*
30898199 CTGTGTG
1 CCGTGTG
30898206 AAAACTAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.23, G:0.42, T:0.29
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:30907260 original size:12 final size:12
Alignment explanation
Indices: 30907243--30907272 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
30907233 TACCACACTC
30907243 CCGTGTGCCAGG
1 CCGTGTGCCAGG
30907255 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
30907267 TCGTGT
1 CCGTGT
30907273 AGAAACTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:30916498 original size:22 final size:22
Alignment explanation
Indices: 30916471--30916756 Score: 154
Period size: 22 Copynumber: 13.0 Consensus size: 22
30916461 TAGATTAGAA
*
30916471 TTTTGTATGAATATTTTAATTT
1 TTTTGTATGAATATTATAATTT
30916493 TTTTGTATGAATATTATAA--T
1 TTTTGTATGAATATTATAATTT
*
30916513 TTTT-TATGAATATTGTAA---
1 TTTTGTATGAATATTATAATTT
* * * *
30916531 TGTTGTATGAATATTGTAACTA
1 TTTTGTATGAATATTATAATTT
* * *
30916553 TTTTATAATTAA-ATCTGT-ATTT
1 TTTTGT-ATGAATAT-TATAATTT
* *
30916575 ATAGTTT-T-GGAATA--GTAA-TT
1 -T--TTTGTATGAATATTATAATTT
*
30916595 TTTTGTATGAATATTGTAA---
1 TTTTGTATGAATATTATAATTT
30916614 TTTTGTATGAATATTATAATTT
1 TTTTGTATGAATATTATAATTT
*
30916636 TTTTGTATGAATATTGTTATATTAT
1 TTTTGTATGAATATT-ATA-ATT-T
**
30916661 AGTTTTGTATGAATATTGCAATTT
1 --TTTTGTATGAATATTATAATTT
*
30916685 TTTTGTATGAATATTGTAATATTAT
1 TTTTGTATGAATATTAT-A-ATT-T
*
30916710 AATTTTGTATGAATATTACAATTT
1 --TTTTGTATGAATATTATAATTT
* *
30916734 TTTTGTATAAATATTGTAATTT
1 TTTTGTATGAATATTATAATTT
30916756 T
1 T
30916757 GTAATTTTGT
Statistics
Matches: 215, Mismatches: 21, Indels: 56
0.74 0.07 0.19
Matches are distributed among these distances:
17 3 0.01
18 4 0.02
19 51 0.24
20 9 0.04
21 5 0.02
22 79 0.37
23 12 0.06
24 9 0.04
25 11 0.05
26 2 0.01
27 30 0.14
ACGTcount: A:0.32, C:0.01, G:0.12, T:0.55
Consensus pattern (22 bp):
TTTTGTATGAATATTATAATTT
Found at i:30916658 original size:49 final size:49
Alignment explanation
Indices: 30916604--30916775 Score: 272
Period size: 49 Copynumber: 3.5 Consensus size: 49
30916594 TTTTTGTATG
* *
30916604 AATATTGTAATTTTGTATGAATATTATAATTTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
* * *
30916653 TATATTATAGTTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
*
30916702 AATATTATAATTTTGTATGAATATTACAATTTTTTTGTATAAATATTGT
1 AATATTATAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
* *
30916751 AATTTTGTAATTTTGTATGAATATT
1 AATATTATAATTTTGTATGAATATT
30916776 GTAATGTGGG
Statistics
Matches: 112, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 112 1.00
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.55
Consensus pattern (49 bp):
AATATTATAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
Found at i:30916726 original size:19 final size:19
Alignment explanation
Indices: 30916702--30916759 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
30916692 TGAATATTGT
*
30916702 AATATTATAATTTTGTATG
1 AATATTATAATTTTGTATA
*
30916721 AATATTACAATTTTTTTGTATA
1 AATATTATAA---TTTTGTATA
*
30916743 AATATTGTAATTTTGTA
1 AATATTATAATTTTGTA
30916760 ATTTTGTATG
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
19 16 0.50
22 16 0.50
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (19 bp):
AATATTATAATTTTGTATA
Found at i:30916778 original size:27 final size:24
Alignment explanation
Indices: 30916595--30916780 Score: 160
Period size: 27 Copynumber: 7.8 Consensus size: 24
30916585 AATAGTAATT
30916595 TTTTGTATGAATATTGT-A----A
1 TTTTGTATGAATATTGTAATTTTA
*
30916614 TTTTGTATGAATATTATAA-TTT-
1 TTTTGTATGAATATTGTAATTTTA
*
30916636 TTTTGTATGAATATTGTTATATTATA
1 TTTTGTATGAATATTG-TA-ATTTTA
*
30916662 GTTTTGTATGAATATTGCAA-TTT-
1 -TTTTGTATGAATATTGTAATTTTA
30916685 TTTTGTATGAATATTGTAATATTATAA
1 TTTTGTATGAATATTGTAAT-TT-T-A
**
30916712 TTTTGTATGAATATTACAA-TTT-
1 TTTTGTATGAATATTGTAATTTTA
*
30916734 TTTTGTATAAATATTGTAATTTTGTAA
1 TTTTGTATGAATATTGTAA-TTT-T-A
30916761 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
30916781 GTGGGTATAT
Statistics
Matches: 136, Mismatches: 12, Indels: 31
0.76 0.07 0.17
Matches are distributed among these distances:
19 16 0.12
20 1 0.01
22 49 0.36
23 2 0.01
24 8 0.06
25 7 0.05
26 2 0.01
27 51 0.38
ACGTcount: A:0.32, C:0.01, G:0.12, T:0.55
Consensus pattern (24 bp):
TTTTGTATGAATATTGTAATTTTA
Found at i:30916779 original size:19 final size:19
Alignment explanation
Indices: 30916469--30916704 Score: 120
Period size: 19 Copynumber: 12.2 Consensus size: 19
30916459 TTTAGATTAG
*
30916469 AATTTTGTATGAATATTTT
1 AATTTTGTATGAATATTGT
*
30916488 AATTTTTTTGTATGAATATTAT
1 AA---TTTTGTATGAATATTGT
*
30916510 AATTTTTTATGAATATTGT
1 AATTTTGTATGAATATTGT
*
30916529 AATGTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
30916548 AACTATTT-TAT-AATTAAATCTGT
1 AA-T-TTTGTATGAA-T--AT-TGT
*
30916571 -ATTTATAGTTTTGGAATA--GT
1 AATTT-T-G-TAT-GAATATTGT
30916591 AATTTTTTGTATGAATATTGT
1 AA--TTTTGTATGAATATTGT
*
30916612 AATTTTGTATGAATATTAT
1 AATTTTGTATGAATATTGT
*
30916631 AATTTT-TTTG--TA-TG-
1 AATTTTGTATGAATATTGT
* *
30916645 AATATTGT-T--ATATTAT
1 AATTTTGTATGAATATTGT
* *
30916661 AGTTTTGTATGAATATTGC
1 AATTTTGTATGAATATTGT
30916680 AATTTTTTTGTATGAATATTGT
1 AA---TTTTGTATGAATATTGT
30916702 AAT
1 AAT
30916705 ATTATAATTT
Statistics
Matches: 168, Mismatches: 19, Indels: 60
0.68 0.08 0.24
Matches are distributed among these distances:
14 8 0.05
15 3 0.02
16 8 0.05
17 1 0.01
18 3 0.02
19 72 0.43
20 11 0.07
21 10 0.06
22 40 0.24
23 7 0.04
24 2 0.01
25 1 0.01
26 2 0.01
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (19 bp):
AATTTTGTATGAATATTGT
Found at i:30916908 original size:62 final size:63
Alignment explanation
Indices: 30916791--30916921 Score: 237
Period size: 62 Copynumber: 2.1 Consensus size: 63
30916781 GTGGGTATAT
* *
30916791 ATTGTAATTGTCGGAACCGTTTTTTGAAAACAAAAAATTTCAGTTGTCGACTTTAAAAATTAA
1 ATTGGAATTGTCGGAACCGTTTTTTGAAAACAAAAAATTTCAGTTGTCGACTTTAAAAATAAA
30916854 ATTGGAATTGTCGGAACCGTTTTTTGAAAAC-AAAAATTTCAGTTGTCGACTTTAAAAATAAA
1 ATTGGAATTGTCGGAACCGTTTTTTGAAAACAAAAAATTTCAGTTGTCGACTTTAAAAATAAA
30916916 ATTGGA
1 ATTGGA
30916922 GTCGTCACCG
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
62 36 0.55
63 30 0.45
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (63 bp):
ATTGGAATTGTCGGAACCGTTTTTTGAAAACAAAAAATTTCAGTTGTCGACTTTAAAAATAAA
Found at i:30918081 original size:25 final size:25
Alignment explanation
Indices: 30918020--30918095 Score: 77
Period size: 25 Copynumber: 3.0 Consensus size: 25
30918010 ATATATATAC
30918020 ATATATATTATAT-AAAAAA--CAAT
1 ATATATATTATATAAAAAAATGC-AT
* *
30918043 ATGTGAATACTATATAAAAAAATGCAT
1 ATAT--ATATTATATAAAAAAATGCAT
30918070 ATATATATTATATAAGAAAAATGCAT
1 ATATATATTATATAA-AAAAATGCAT
30918096 GTGAATGAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
23 3 0.07
25 18 0.42
26 16 0.37
27 5 0.12
28 1 0.02
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (25 bp):
ATATATATTATATAAAAAAATGCAT
Found at i:30918127 original size:12 final size:12
Alignment explanation
Indices: 30918112--30918153 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
30918102 GAACATAGAG
*
30918112 ATAATGATAGTA
1 ATAATGATAATA
30918124 ATAATGATAATA
1 ATAATGATAATA
30918136 TATAAT-ATAATA
1 -ATAATGATAATA
30918148 ATAATG
1 ATAATG
30918154 TTTTTTTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 5 0.19
12 17 0.63
13 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.36
Consensus pattern (12 bp):
ATAATGATAATA
Found at i:30919345 original size:60 final size:60
Alignment explanation
Indices: 30919264--30919385 Score: 165
Period size: 60 Copynumber: 2.0 Consensus size: 60
30919254 TGTATGAATA
* * * * * *
30919264 TTGTAATTATTTTATAATTAATTTGTTAGTAATTTGGGATTATGTTATAAATTTTTGTGT
1 TTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
*
30919324 TTGTAATTA-TTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAGTTGTTGTGT
1 TTGTAATTATTTTAAAA-TTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
30919384 TT
1 TT
30919386 AGTTTAGTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
59 6 0.11
60 48 0.89
ACGTcount: A:0.30, C:0.01, G:0.15, T:0.54
Consensus pattern (60 bp):
TTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
Found at i:30919472 original size:39 final size:39
Alignment explanation
Indices: 30919419--30919501 Score: 150
Period size: 39 Copynumber: 2.2 Consensus size: 39
30919409 CATATAAAGT
30919419 TTAT-AAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
1 TTATAAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
*
30919457 TTATAAAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
1 TTATAAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
30919496 TTATAA
1 TTATAA
30919502 CTGACTTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 4 0.09
39 39 0.91
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (39 bp):
TTATAAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
Found at i:30919579 original size:15 final size:15
Alignment explanation
Indices: 30919538--30919579 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
30919528 GTTAACTCAT
*
30919538 TTAATTTTTATATAA
1 TTAAATTTTATATAA
*
30919553 TGTAACTTTTATATAA
1 T-TAAATTTTATATAA
30919569 TTAAATTTTAT
1 TTAAATTTTAT
30919580 TTGATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTAAATTTTATATAA
Found at i:30922626 original size:22 final size:21
Alignment explanation
Indices: 30922591--30922635 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
30922581 TACCTAATTT
*
30922591 TTTTCTTCTTTTCCTTACTTC
1 TTTTCTTCTCTTCCTTACTTC
*
30922612 TTTTCTTCTGCTTCCTTCCTTC
1 TTTTCTTCT-CTTCCTTACTTC
30922634 TT
1 TT
30922636 ATTTCTTTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.02, C:0.31, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTCTTCTCTTCCTTACTTC
Found at i:30922766 original size:27 final size:27
Alignment explanation
Indices: 30922720--30922776 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
30922710 CTCTCAGAAT
*
30922720 GGCACCACCATTGGCACCTCCCAGGTA
1 GGCACCACCATTGGCACCTCCCAGATA
*
30922747 GGCACCACCAATT-GCGCCTCCCAGATA
1 GGCACCACC-ATTGGCACCTCCCAGATA
30922774 GGC
1 GGC
30922777 GCCAATACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 24 0.89
28 3 0.11
ACGTcount: A:0.23, C:0.40, G:0.23, T:0.14
Consensus pattern (27 bp):
GGCACCACCATTGGCACCTCCCAGATA
Found at i:30925073 original size:23 final size:25
Alignment explanation
Indices: 30925043--30925090 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
30925033 AATTTATCAA
30925043 ATTCTT-AAAG-AATTATAAAAATT
1 ATTCTTAAAAGTAATTATAAAAATT
30925066 ATTCTTAAAAGTTAATTATAAAAAT
1 ATTCTTAAAAG-TAATTATAAAAAT
30925091 ACAAAATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.27
24 4 0.18
26 12 0.55
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (25 bp):
ATTCTTAAAAGTAATTATAAAAATT
Found at i:30929371 original size:25 final size:25
Alignment explanation
Indices: 30929317--30929387 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
30929307 AGATCTCTTT
* *
30929317 CGAGCCATATAACAGGAAGTTTATG
1 CGAGCCATATAACAGGAAGCTTATC
* *
30929342 TGAGCCATGTAACAGGAAGCTTATC
1 CGAGCCATATAACAGGAAGCTTATC
** *
30929367 CGAGCTGTATAATAGGAAGCT
1 CGAGCCATATAACAGGAAGCT
30929388 CATAAGAGCC
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (25 bp):
CGAGCCATATAACAGGAAGCTTATC
Found at i:30933430 original size:44 final size:44
Alignment explanation
Indices: 30933367--30933460 Score: 143
Period size: 44 Copynumber: 2.1 Consensus size: 44
30933357 GGCTGTTACA
*** * *
30933367 GCGGGTATTTGTTGTGTATCCACAACTAGAGGTAGATTCCATCT
1 GCGGGTATTTGCCCTGTATCCACAACCAGAGGCAGATTCCATCT
30933411 GCGGGTATTTGCCCTGTATCCACAACCAGAGGCAGATTCCATCT
1 GCGGGTATTTGCCCTGTATCCACAACCAGAGGCAGATTCCATCT
30933455 GCGGGT
1 GCGGGT
30933461 TAATTGTTGT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (44 bp):
GCGGGTATTTGCCCTGTATCCACAACCAGAGGCAGATTCCATCT
Found at i:30935384 original size:25 final size:25
Alignment explanation
Indices: 30935350--30935402 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
30935340 AGAAGGACAA
30935350 AAAAATAAAGGAAATTCAAAACATT
1 AAAAATAAAGGAAATTCAAAACATT
30935375 AAAAATAAAGGAAATTCAAAACATT
1 AAAAATAAAGGAAATTCAAAACATT
30935400 AAA
1 AAA
30935403 TGATTTTTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.66, C:0.08, G:0.08, T:0.19
Consensus pattern (25 bp):
AAAAATAAAGGAAATTCAAAACATT
Found at i:30939135 original size:43 final size:43
Alignment explanation
Indices: 30939066--30939377 Score: 439
Period size: 43 Copynumber: 7.3 Consensus size: 43
30939056 TTTATTCTAT
* *
30939066 AAACGCCGCTATAGATCATGATCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCCAC
* * * *
30939109 AAACACCGCTTTAGATCAAGACCTTTAGCGGCGATTATTCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCCAC
* *
30939152 AAACGCCGCTATAGATCATGATCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCCAC
* * *
30939195 AAACGCCGCTATTGATCAGGACCTTTAGCGGCGATTTTTCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCCAC
* *
30939238 AAACGCCGCTATAGATCAATATCTTTAGCGGCGC-TTTTCACAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTC-CAC
* * * *
30939281 AAACGCCACTATAGATCAATACCTTTAGCGGCGCTTTCTCTAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCCAC
30939324 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGC-TTTTCACAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTC-CAC
30939367 AAACGCCGCTA
1 AAACGCCGCTA
30939378 AAAACATCTT
Statistics
Matches: 237, Mismatches: 29, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
42 9 0.04
43 224 0.95
44 4 0.02
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCCAC
Found at i:30939430 original size:19 final size:17
Alignment explanation
Indices: 30939386--30939437 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 17
30939376 TAAAAACATC
30939386 TTTAAA-AAATATTT-T
1 TTTAAATAAATATTTAT
30939401 TTTAAAT-AATATTTAT
1 TTTAAATAAATATTTAT
30939417 TTCTATAATAAATATTATAT
1 TT-TA-AATAAATATT-TAT
30939437 T
1 T
30939438 ATATTTTAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
15 13 0.42
16 3 0.10
17 2 0.06
18 3 0.10
19 6 0.19
20 4 0.13
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTAAATAAATATTTAT
Found at i:30939701 original size:43 final size:43
Alignment explanation
Indices: 30939637--30939721 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
30939627 ATATGCAAGA
* *
30939637 TAATAAAACATACAATGCATTTTA-TTAATCAAGTAAATCTTGG
1 TAATAAAACATACAATACA-TTTACTTAATCAAGAAAATCTTGG
* *
30939680 TAATAAAAGATATAATACATTTACTTAATCAAGAAAATCTTG
1 TAATAAAACATACAATACATTTACTTAATCAAGAAAATCTTG
30939722 TACATCATTG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
42 4 0.11
43 33 0.89
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (43 bp):
TAATAAAACATACAATACATTTACTTAATCAAGAAAATCTTGG
Found at i:30941917 original size:13 final size:13
Alignment explanation
Indices: 30941899--30941924 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30941889 TAAATTGCTT
30941899 TTTGGTTAAATTA
1 TTTGGTTAAATTA
30941912 TTTGGTTAAATTA
1 TTTGGTTAAATTA
30941925 CCTGCGAGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTTGGTTAAATTA
Found at i:30944234 original size:7 final size:7
Alignment explanation
Indices: 30944224--30944262 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
30944214 TCCTAACTCT
30944224 TAACCCC
1 TAACCCC
**
30944231 TAACATC
1 TAACCCC
30944238 TAACCCC
1 TAACCCC
30944245 TAAACCCC
1 T-AACCCC
30944253 TAACCCC
1 TAACCCC
30944260 TAA
1 TAA
30944263 ACATTAAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.36, C:0.46, G:0.00, T:0.18
Consensus pattern (7 bp):
TAACCCC
Found at i:30944234 original size:14 final size:13
Alignment explanation
Indices: 30944215--30944262 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 13
30944205 ACCTTAAATT
30944215 CCTAACTCTTAACC
1 CCTAACTC-TAACC
30944229 CCTAACATCTAACC
1 CCTAAC-TCTAACC
*
30944243 CCTAAACCCCTAACC
1 CCT-AA-CTCTAACC
30944258 CCTAA
1 CCTAA
30944263 ACATTAAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
14 16 0.53
15 13 0.43
16 1 0.03
ACGTcount: A:0.33, C:0.46, G:0.00, T:0.21
Consensus pattern (13 bp):
CCTAACTCTAACC
Found at i:30944257 original size:15 final size:15
Alignment explanation
Indices: 30944224--30944265 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
30944214 TCCTAACTCT
*
30944224 TAACCCCT-AACATC
1 TAACCCCTAAACACC
*
30944238 TAACCCCTAAACCCC
1 TAACCCCTAAACACC
30944253 TAACCCCTAAACA
1 TAACCCCTAAACA
30944266 TTAAATCCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 8 0.33
15 16 0.67
ACGTcount: A:0.38, C:0.45, G:0.00, T:0.17
Consensus pattern (15 bp):
TAACCCCTAAACACC
Found at i:30944284 original size:21 final size:22
Alignment explanation
Indices: 30944245--30944285 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
30944235 ATCTAACCCC
30944245 TAAACCCCTAACCCCTAAACAT
1 TAAACCCCTAACCCCTAAACAT
* *
30944267 TAAATCCC-AACCCTTAAAC
1 TAAACCCCTAACCCCTAAAC
30944286 CATAATCCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.41, C:0.39, G:0.00, T:0.20
Consensus pattern (22 bp):
TAAACCCCTAACCCCTAAACAT
Found at i:30944532 original size:15 final size:15
Alignment explanation
Indices: 30944512--30944545 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
30944502 CCTAGCACGT
30944512 CTAACCCCCAAACCC
1 CTAACCCCCAAACCC
* *
30944527 CTAACCCTCTAACCC
1 CTAACCCCCAAACCC
30944542 CTAA
1 CTAA
30944546 ACCTTAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.53, G:0.00, T:0.15
Consensus pattern (15 bp):
CTAACCCCCAAACCC
Found at i:30944596 original size:283 final size:286
Alignment explanation
Indices: 30944098--30944698 Score: 811
Period size: 283 Copynumber: 2.1 Consensus size: 286
30944088 AATATATTTG
*
30944098 ATTTATTATTATCTATTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAAAATAAT
1 ATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATT-AAAAAAATAAT
* * **
30944163 TAATCTAAACTCAAAACCTTAACTCGACCCCTAAATCCCTAAACCTTAAATTCCTAACTCTTAAC
65 TAATCTAAACCCAAAACCCTAACTCGACCCCTAAATCCCTAAACCTTAAACCCCTAACTCTTAAC
* *
30944228 CCCTAACATCTAACCCCTAAACCCCTAACCCCTAAACATTAAATCCCAACCCTTAAACCATAATC
130 CCC--ACA--TAACCCCTAAACCCCTAACCCCTAAACATTAAATACCAACCCCTAAACCATAATC
* * * * * ** * *
30944293 CCTAAATCTATACTCCCTAAATCTTAAAATATTAGTTATTAAACTGCCCTTAAATCTTAAATTAA
191 CCTAAACCCAAACTCCCTAAACCTTAAAATATGAACTATTAAACCGCCCTTAAATCTTAAATAAA
*
30944358 TCATATACCCTAAACTAAAAACCCTAAACAA
256 TCATATACCCTAAACCAAAAACCCTAAACAA
*
30944389 ATTTATTATTATCCCTTTTACAATTATA-AAGAACATATTTAAAATATAAATT-AAAAAATAATT
1 ATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAAATAATT
** * * *
30944452 AATCTAAACCCAAAACCCTAACTCGACCCCTGGATCTCT-AACTTTTAACCCCTAGCACGTC-TA
66 AATCTAAACCCAAAACCCTAACTCGACCCCTAAATCCCTAAACCTTAAACCCCTA--AC-TCTTA
* * *
30944515 ACCCC-CA-AACCCCT-AACCCTCTAACCCCTAAACCTTAAATACCAACCCCTAATCCATAATCT
128 ACCCCACATAACCCCTAAACCC-CTAACCCCTAAACATTAAATACCAACCCCTAAACCATAATCC
* *
30944577 CTAAACCCAAACTCCCTAAACCTTAAAATATGAACTCTTAAACCGGCCTTAAATCTTAAATAAAT
192 CTAAACCCAAACTCCCTAAACCTTAAAATATGAACTATTAAACCGCCCTTAAATCTTAAATAAAT
30944642 CATATACCCTAAACCAAAAACCCTAAACAA
257 CATATACCCTAAACCAAAAACCCTAAACAA
*
30944672 ATTTATTATTATCTCTCTTACAATTAT
1 ATTTATTATTATCTCTTTTACAATTAT
30944699 TTTAAATAAT
Statistics
Matches: 276, Mismatches: 30, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
282 5 0.02
283 152 0.55
286 2 0.01
287 11 0.04
288 45 0.16
289 9 0.03
290 26 0.09
291 26 0.09
ACGTcount: A:0.42, C:0.27, G:0.02, T:0.29
Consensus pattern (286 bp):
ATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAAATAATT
AATCTAAACCCAAAACCCTAACTCGACCCCTAAATCCCTAAACCTTAAACCCCTAACTCTTAACC
CCACATAACCCCTAAACCCCTAACCCCTAAACATTAAATACCAACCCCTAAACCATAATCCCTAA
ACCCAAACTCCCTAAACCTTAAAATATGAACTATTAAACCGCCCTTAAATCTTAAATAAATCATA
TACCCTAAACCAAAAACCCTAAACAA
Found at i:30945057 original size:114 final size:114
Alignment explanation
Indices: 30944843--30945443 Score: 785
Period size: 114 Copynumber: 5.3 Consensus size: 114
30944833 AGATAAAATA
* ** *
30944843 TTTTTAGCGGCGCTTTCCGAAAAACGCCGCTAAAAACCTGCGCATTAGCGGCGCTTTCATAAAAA
1 TTTTT-GCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCATAAAAA
* * *
30944908 CGCCGCTAAATCCCCGAAAGCTCATAAAACGGCGTCGTTGGACTGAGGTG
65 CGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAGGTG
* * *
30944958 ATTTTGCAGCGCTTTCCCAAAAACGCCACTAAAGCCCTGAGCATTAGCGGCGCTTTCATAAAAAC
1 TTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCATAAAAAC
* * ** * *
30945023 GCCGCTAAATCCTCGAAAGCTCAGAAAAATGCGTCGTTGGACTGAGGTG
66 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAGGTG
* * * *
30945072 ATTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCTCTGAACATTAGCGGCGCTTTCTTAAAAAC
1 TTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCATAAAAAC
* ** * *
30945137 GCCGCTAAATCCTCGAAAGCTCAGGAAACGGCGTTGTTGGGCTTAGGTT
66 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAGGTG
* * * ** * * *
30945186 TTTTTGCGGCGCTTCCCCAAAAACGCTGCTAAAGGCCTGAGCATTAGCATCTCTTTCCTAAAAAT
1 TTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCATAAAAAC
*
30945251 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAGGTT
66 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAGGTG
* * *
30945300 TTTTTGCGGCGC-TTCCTCCAAAACGCCGGTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAA
1 TTTTTGCGGCGCTTTCC-CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCATAAAAA
** *
30945364 CGCCGCTAAATCAACAAAAGCTCACAAAACGGCGTCGTTGGGCTTA-GT-
65 CGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAGGTG
* *
30945412 TTTTTGCCGCGCTTTCTCAAAAACGCCGCTAA
1 TTTTTGCGGCGCTTTCCCAAAAACGCCGCTAA
30945444 TGCTTATTTT
Statistics
Matches: 429, Mismatches: 55, Indels: 7
0.87 0.11 0.01
Matches are distributed among these distances:
112 24 0.06
113 8 0.02
114 393 0.92
115 4 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (114 bp):
TTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCATAAAAAC
GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAGGTG
Found at i:30946181 original size:16 final size:16
Alignment explanation
Indices: 30946160--30946192 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
30946150 AGTTAATTTA
30946160 TTAATATTTTATAAAT
1 TTAATATTTTATAAAT
30946176 TTAATATTTTATAAAT
1 TTAATATTTTATAAAT
30946192 T
1 T
30946193 GAAAAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTAATATTTTATAAAT
Found at i:30953072 original size:26 final size:26
Alignment explanation
Indices: 30953031--30953088 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
30953021 ATAAGAGCCA
** *
30953031 TAATCAAGAAGTTCACAAAGAACTTT
1 TAATCAAGAAACTCACAAAGAACCTT
* *
30953057 TAATCAAGAAACTCACGAAGAGCCTT
1 TAATCAAGAAACTCACAAAGAACCTT
30953083 TAATCA
1 TAATCA
30953089 GGAGCTCCGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.45, C:0.19, G:0.12, T:0.24
Consensus pattern (26 bp):
TAATCAAGAAACTCACAAAGAACCTT
Found at i:30953992 original size:13 final size:13
Alignment explanation
Indices: 30953974--30954000 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30953964 AAAACCTTAG
30953974 TACCTTGATAACT
1 TACCTTGATAACT
30953987 TACCTTGATAACT
1 TACCTTGATAACT
30954000 T
1 T
30954001 TGCAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (13 bp):
TACCTTGATAACT
Found at i:30988549 original size:24 final size:24
Alignment explanation
Indices: 30988517--30988568 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
30988507 CCTTTTGAGT
30988517 AGGATATGTG-CCTAGAGGAACCTC
1 AGGATATGTGTCC-AGAGGAACCTC
*
30988541 AGGATATGTGTCCAGAGGACCCTC
1 AGGATATGTGTCCAGAGGAACCTC
30988565 AGGA
1 AGGA
30988569 CTTTGAAGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 24 0.92
25 2 0.08
ACGTcount: A:0.29, C:0.21, G:0.31, T:0.19
Consensus pattern (24 bp):
AGGATATGTGTCCAGAGGAACCTC
Found at i:30993607 original size:44 final size:44
Alignment explanation
Indices: 30993544--30993832 Score: 373
Period size: 44 Copynumber: 6.6 Consensus size: 44
30993534 ACCACCATAG
* *
30993544 CAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
* *
30993588 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
* *
30993632 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
* * * * *
30993676 CAAATCCTATCTCTCTGAAGTTACAGTGGAGCAGACTAAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
* * * *
30993720 CAACTCTTATCTCCCTAAAGTTGCAATGAAGCAGATTGAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
* * * *
30993764 CAAATCTCATCTCCCTGAAGTTGCAGTAGAGCATATCGAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
* *
30993808 CAATTCATATAC-CCCTGAAGTTGCA
1 CAAATCTTAT-CTCCCTGAAGTTGCA
30993833 ATGGGTTATA
Statistics
Matches: 211, Mismatches: 33, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
44 210 1.00
45 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.27
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
Found at i:30996620 original size:51 final size:51
Alignment explanation
Indices: 30996543--30996646 Score: 181
Period size: 51 Copynumber: 2.0 Consensus size: 51
30996533 CCAATTTGTT
* *
30996543 ATTTCTCTCCATTAAACTCCCAACTAAATCCACTACTCATATTTTTAGTCC
1 ATTTCTCTCCATCAAACTCCCAACTAAATCCACTACTCAGATTTTTAGTCC
*
30996594 ATTTCTCTCCATCAAACTCCCCACTAAATCCACTACTCAGATTTTTAGTCC
1 ATTTCTCTCCATCAAACTCCCAACTAAATCCACTACTCAGATTTTTAGTCC
30996645 AT
1 AT
30996647 CTCAAACCCT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.29, C:0.33, G:0.03, T:0.36
Consensus pattern (51 bp):
ATTTCTCTCCATCAAACTCCCAACTAAATCCACTACTCAGATTTTTAGTCC
Found at i:31001970 original size:17 final size:17
Alignment explanation
Indices: 31001948--31002016 Score: 63
Period size: 17 Copynumber: 4.2 Consensus size: 17
31001938 TACTAGTAAC
*
31001948 GCCACACGGTCGTGTGA
1 GCCACACGGGCGTGTGA
31001965 GCCACACGGGC-TG-G-
1 GCCACACGGGCGTGTGA
*** *
31001979 GCCAGTTGGGTCGTGTGG
1 GCCACACGGG-CGTGTGA
31001997 GCCACACGGGCGTGTGA
1 GCCACACGGGCGTGTGA
31002014 GCC
1 GCC
31002017 CATTTTATAA
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
14 7 0.17
15 2 0.05
16 4 0.10
17 20 0.50
18 7 0.17
ACGTcount: A:0.13, C:0.29, G:0.42, T:0.16
Consensus pattern (17 bp):
GCCACACGGGCGTGTGA
Found at i:31007952 original size:15 final size:14
Alignment explanation
Indices: 31007935--31007971 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
31007925 ATGTGCAAAC
31007935 CCCCTATAGGCGAA
1 CCCCTATAGGCGAA
* *
31007949 CCCCTGTATGCGAA
1 CCCCTATAGGCGAA
31007963 CCCCTATAG
1 CCCCTATAG
31007972 ATGAACCTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.24, C:0.38, G:0.19, T:0.19
Consensus pattern (14 bp):
CCCCTATAGGCGAA
Found at i:31008654 original size:21 final size:21
Alignment explanation
Indices: 31008628--31008674 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
31008618 GGTATAGCAA
31008628 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
*** *
31008649 GATCACTTTATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
31008670 GATCA
1 GATCA
31008675 ACATTTGAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.36, G:0.11, T:0.28
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:31009644 original size:19 final size:19
Alignment explanation
Indices: 31009622--31009660 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
31009612 CTTTTTTTCC
31009622 TATTTTTGA-CTTTGATTTT
1 TATTTTT-ATCTTTGATTTT
*
31009641 TATTTTTATTTTTGATTTT
1 TATTTTTATCTTTGATTTT
31009660 T
1 T
31009661 TGATTTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.15, C:0.03, G:0.08, T:0.74
Consensus pattern (19 bp):
TATTTTTATCTTTGATTTT
Found at i:31009662 original size:8 final size:8
Alignment explanation
Indices: 31009649--31009719 Score: 106
Period size: 8 Copynumber: 8.6 Consensus size: 8
31009639 TTTATTTTTA
31009649 TTTTTGAT
1 TTTTTGAT
31009657 TTTTTGAT
1 TTTTTGAT
31009665 TTTTTGATT
1 TTTTTGA-T
31009674 TTTTTGAT
1 TTTTTGAT
31009682 TTTTTGAT
1 TTTTTGAT
*
31009690 TTTTTTACT
1 TTTTTGA-T
*
31009699 TTTTTTAT
1 TTTTTGAT
31009707 TTTTTGAT
1 TTTTTGAT
31009715 TTTTT
1 TTTTT
31009720 TTGAGTCTGA
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
8 43 0.73
9 16 0.27
ACGTcount: A:0.11, C:0.01, G:0.08, T:0.79
Consensus pattern (8 bp):
TTTTTGAT
Found at i:31009676 original size:17 final size:16
Alignment explanation
Indices: 31009649--31009719 Score: 106
Period size: 17 Copynumber: 4.3 Consensus size: 16
31009639 TTTATTTTTA
31009649 TTTTTGATTTTTTGAT
1 TTTTTGATTTTTTGAT
31009665 TTTTTGATTTTTTTGAT
1 TTTTTGA-TTTTTTGAT
*
31009682 TTTTTGATTTTTTTACT
1 TTTTTGATTTTTTGA-T
*
31009699 TTTTTTATTTTTTGAT
1 TTTTTGATTTTTTGAT
31009715 TTTTT
1 TTTTT
31009720 TTGAGTCTGA
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
16 20 0.40
17 30 0.60
ACGTcount: A:0.11, C:0.01, G:0.08, T:0.79
Consensus pattern (16 bp):
TTTTTGATTTTTTGAT
Found at i:31009677 original size:25 final size:26
Alignment explanation
Indices: 31009649--31009719 Score: 119
Period size: 25 Copynumber: 2.8 Consensus size: 26
31009639 TTTATTTTTA
31009649 TTTTTGATTTTTTGATTTTTTGA-TT
1 TTTTTGATTTTTTGATTTTTTGACTT
*
31009674 TTTTTGATTTTTTGATTTTTTTACTT
1 TTTTTGATTTTTTGATTTTTTGACTT
31009700 TTTTT-ATTTTTTGATTTTTT
1 TTTTTGATTTTTTGATTTTTT
31009720 TTGAGTCTGA
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
25 37 0.84
26 7 0.16
ACGTcount: A:0.11, C:0.01, G:0.08, T:0.79
Consensus pattern (26 bp):
TTTTTGATTTTTTGATTTTTTGACTT
Found at i:31009720 original size:25 final size:24
Alignment explanation
Indices: 31009632--31009720 Score: 115
Period size: 25 Copynumber: 3.5 Consensus size: 24
31009622 TATTTTTGAC
*
31009632 TTTGATTTTTATTTTTATTTTTGATTT
1 TTTGATTTTT-TTATT-TTTTT-ATTT
*
31009659 TTTGATTTTTTGATTTTTTTGATTT
1 TTTGATTTTTTTATTTTTTT-ATTT
31009684 TTTGATTTTTTTACTTTTTTTATTT
1 TTTGATTTTTTTA-TTTTTTTATTT
31009709 TTTGATTTTTTT
1 TTTGATTTTTTT
31009721 TGAGTCTGAA
Statistics
Matches: 58, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
25 38 0.66
26 10 0.17
27 10 0.17
ACGTcount: A:0.12, C:0.01, G:0.08, T:0.79
Consensus pattern (24 bp):
TTTGATTTTTTTATTTTTTTATTT
Found at i:31021750 original size:11 final size:11
Alignment explanation
Indices: 31021734--31021758 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
31021724 ATATTGAAAC
31021734 CTATGCAGTTT
1 CTATGCAGTTT
31021745 CTATGCAGTTT
1 CTATGCAGTTT
31021756 CTA
1 CTA
31021759 ATTTCTCCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.44
Consensus pattern (11 bp):
CTATGCAGTTT
Found at i:31022244 original size:26 final size:26
Alignment explanation
Indices: 31022208--31022261 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
31022198 TTGGGTATAG
31022208 TCAGATACAGGTAATGTTCAGTTTGT
1 TCAGATACAGGTAATGTTCAGTTTGT
31022234 TCAGATACAGGTAATGTTCAGTTTGT
1 TCAGATACAGGTAATGTTCAGTTTGT
31022260 TC
1 TC
31022262 TAAGCTTTCC
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:0.26, C:0.13, G:0.22, T:0.39
Consensus pattern (26 bp):
TCAGATACAGGTAATGTTCAGTTTGT
Found at i:31023087 original size:40 final size:40
Alignment explanation
Indices: 31023032--31023112 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
31023022 GCAGAGATAG
31023032 GTGCAAATCACTAAATCACAACAATGAAGTTCAAGCTCAA
1 GTGCAAATCACTAAATCACAACAATGAAGTTCAAGCTCAA
31023072 GTGCAAATCACTAAATCACAACAATGAAGTTCAAGCTCAA
1 GTGCAAATCACTAAATCACAACAATGAAGTTCAAGCTCAA
31023112 G
1 G
31023113 AACATTCCAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.44, C:0.22, G:0.14, T:0.20
Consensus pattern (40 bp):
GTGCAAATCACTAAATCACAACAATGAAGTTCAAGCTCAA
Found at i:31025982 original size:59 final size:60
Alignment explanation
Indices: 31025877--31025997 Score: 145
Period size: 59 Copynumber: 2.0 Consensus size: 60
31025867 TTTACATTTT
* * * * *
31025877 GGTACCTGAACTTGGCTTATGATTCAAATTGGTATCTAATG-ATTTTTTTTGTCCAATTA
1 GGTACCTGAACTTGGCTTAAGACTCAAATTAGTACCTAACGTATTTTTTTTGTCCAATTA
* * * * *
31025936 GGTACTTGAACTTGGCTTAAGGCTCAATTTAGTACCTAACGTTTTTTTTTTGTTCAATTA
1 GGTACCTGAACTTGGCTTAAGACTCAAATTAGTACCTAACGTATTTTTTTTGTCCAATTA
31025996 GG
1 GG
31025998 GTTACGAATA
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
59 33 0.65
60 18 0.35
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.44
Consensus pattern (60 bp):
GGTACCTGAACTTGGCTTAAGACTCAAATTAGTACCTAACGTATTTTTTTTGTCCAATTA
Found at i:31027616 original size:3 final size:3
Alignment explanation
Indices: 31027608--31027653 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
31027598 TAATACTATC
31027608 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
31027654 CCTTTTAGCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:31045379 original size:6 final size:6
Alignment explanation
Indices: 31045370--31045403 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
31045360 AGAGAGAGAA
31045370 AAAAAT AAAAAT AAAAAT AAGATAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AA-A-AAT AAAAAT AA
31045404 TATCTCAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 19 0.73
7 2 0.08
8 5 0.19
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (6 bp):
AAAAAT
Found at i:31045396 original size:14 final size:12
Alignment explanation
Indices: 31045370--31045403 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 12
31045360 AGAGAGAGAA
31045370 AAAAATAAAAAT
1 AAAAATAAAAAT
31045382 AAAAATAAGATAAT
1 AAAAATAA-A-AAT
31045396 AAAAATAA
1 AAAAATAA
31045404 TATCTCAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 1 0.05
14 11 0.55
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (12 bp):
AAAAATAAAAAT
Found at i:31048866 original size:17 final size:16
Alignment explanation
Indices: 31048834--31048877 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
31048824 AATAAATTTG
*
31048834 TATATT-TTATTTTTA
1 TATATTATTATTATTA
31048849 TATTATTATTATTATTA
1 TA-TATTATTATTATTA
31048866 TATATTTATTAT
1 TATA-TTATTAT
31048878 GAAATTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 2 0.08
16 6 0.24
17 17 0.68
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATATTATTATTATTA
Found at i:31050961 original size:44 final size:44
Alignment explanation
Indices: 31050898--31050988 Score: 155
Period size: 44 Copynumber: 2.1 Consensus size: 44
31050888 ATAGGTTAAA
*
31050898 TAATATTAAAATAAACTACATTAATTAAAGTTTAAGTGGGAAAC
1 TAATATTAAAATAAACTACATTAATCAAAGTTTAAGTGGGAAAC
* *
31050942 TAATATTAAAATAACCTACATTAATCAGAGTTTAAGTGGGAAAC
1 TAATATTAAAATAAACTACATTAATCAAAGTTTAAGTGGGAAAC
31050986 TAA
1 TAA
31050989 AAACTATAGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.31
Consensus pattern (44 bp):
TAATATTAAAATAAACTACATTAATCAAAGTTTAAGTGGGAAAC
Found at i:31052785 original size:23 final size:22
Alignment explanation
Indices: 31052739--31052785 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
31052729 AGATAAAACT
*
31052739 AAACCCCAAAACCTAAAAATAA
1 AAACCCCAAAACCTAAAAACAA
* *
31052761 AAACCCTCAAAACGTAAACACAA
1 AAACCC-CAAAACCTAAAAACAA
31052784 AA
1 AA
31052786 TTCTCTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.62, C:0.28, G:0.02, T:0.09
Consensus pattern (22 bp):
AAACCCCAAAACCTAAAAACAA
Found at i:31053916 original size:107 final size:107
Alignment explanation
Indices: 31053769--31054060 Score: 462
Period size: 107 Copynumber: 2.7 Consensus size: 107
31053759 TTTAAGAGTG
* * *
31053769 TATTTGG-CTAAACG-AGAAATCGAAACCCAGCGCATTAGGGCACGTTTTCTCGAATTTCCAAAT
1 TATTTGGTC-AAACGAAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAAC
* *
31053832 ACAAAATATTGCCTTACTTTGAAATTTTAAAAGTATATTTGGC
65 GCAAAATATTGCCTTACTTTGAAATTTTAAAAGGATATTTGGC
* * *
31053875 TATTTGGTCGAACGAAAAAATCAAAATCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACG
1 TATTTGGTCAAACGAAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACG
*
31053940 CAAAATATTGCCATACTTTGAAATTTTAAAAGGATATTTGGC
66 CAAAATATTGCCTTACTTTGAAATTTTAAAAGGATATTTGGC
* *
31053982 TATTTGGTCAAACGAAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCAAATTTTCAAACG
1 TATTTGGTCAAACGAAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACG
31054047 CAAAATATTGCCTT
66 CAAAATATTGCCTT
31054061 TATTATTTTT
Statistics
Matches: 169, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
106 11 0.07
107 158 0.93
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (107 bp):
TATTTGGTCAAACGAAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACG
CAAAATATTGCCTTACTTTGAAATTTTAAAAGGATATTTGGC
Found at i:31054615 original size:2 final size:2
Alignment explanation
Indices: 31054610--31054677 Score: 61
Period size: 2 Copynumber: 35.5 Consensus size: 2
31054600 TAAAAAATGC
* * * * * *
31054610 AT AT AT AG AT AT AT AT AT AT AT AT AG AT AT GT AA AC AA AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31054651 AT A- AT AT AT AT AT AT AT AT A- AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
31054678 AGTATGTATA
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
1 3 0.06
2 50 0.94
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.41
Consensus pattern (2 bp):
AT
Found at i:31054687 original size:17 final size:17
Alignment explanation
Indices: 31054610--31054677 Score: 73
Period size: 18 Copynumber: 3.8 Consensus size: 17
31054600 TAAAAAATGC
31054610 ATATATAGATATATATAT
1 ATATATA-ATATATATAT
* * *
31054628 ATATATAGATATGTAAAC
1 ATATATA-ATATATATAT
*
31054646 AAATTATAATATATATAT
1 ATA-TATAATATATATAT
31054664 ATATATAATATATA
1 ATATATAATATATA
31054678 AGTATGTATA
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
17 11 0.27
18 26 0.63
19 4 0.10
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.41
Consensus pattern (17 bp):
ATATATAATATATATAT
Found at i:31055771 original size:24 final size:23
Alignment explanation
Indices: 31055731--31055779 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
31055721 TACACAATCT
31055731 AAGTAAAAAAAATAAAAGAAATAA
1 AAGTAAAAAAAATAAAAGAAA-AA
* *
31055755 AAGTAAAATGAAA-AAAATAAAAA
1 AAGTAAAA-AAAATAAAAGAAAAA
31055778 AA
1 AA
31055780 CAGAGACGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 4 0.18
24 15 0.68
25 3 0.14
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (23 bp):
AAGTAAAAAAAATAAAAGAAAAA
Found at i:31055772 original size:20 final size:20
Alignment explanation
Indices: 31055739--31055776 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
31055729 CTAAGTAAAA
31055739 AAAATAAAAGAAATAAAAGT
1 AAAATAAAAGAAATAAAAGT
31055759 AAAATGAAAA-AAATAAAA
1 AAAAT-AAAAGAAATAAAA
31055777 AAACAGAGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.13
Consensus pattern (20 bp):
AAAATAAAAGAAATAAAAGT
Found at i:31055777 original size:9 final size:9
Alignment explanation
Indices: 31055734--31055779 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
31055724 ACAATCTAAG
31055734 TAAAAAAAA
1 TAAAAAAAA
*
31055743 TAAAAGAAA
1 TAAAAAAAA
31055752 TAAAAGTAAAA
1 TAAAA--AAAA
*
31055763 TGAAAAAAA
1 TAAAAAAAA
31055772 TAAAAAAA
1 TAAAAAAA
31055780 CAGAGACGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
9 24 0.77
11 7 0.23
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:31056890 original size:44 final size:44
Alignment explanation
Indices: 31056796--31056910 Score: 124
Period size: 44 Copynumber: 2.6 Consensus size: 44
31056786 GTTTTAATCC
* * **
31056796 GCTCCACTGCAACTTTAGGGAGATAGGATTAGTAGCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAACCT
** * *
31056840 ATTCCACTGTAACTTCAGGGAGATAAGACTT-GTATCTTCAACCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTAGTAGCTTCAACCT
* *
31056884 GCTCCACTGCGACCTCAGGGAGATAAG
1 GCTCCACTGCAACTTCAGGGAGATAAG
31056911 GTTTGATATG
Statistics
Matches: 57, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
44 55 0.96
45 2 0.04
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAACCT
Found at i:31056934 original size:183 final size:183
Alignment explanation
Indices: 31056608--31057105 Score: 703
Period size: 183 Copynumber: 2.7 Consensus size: 183
31056598 CTATCTACTG
* * * * * * *
31056608 TCCGCTCCACTACAAATTTAGGGAGACACGACTT-GTTGTTTTCAGTCTACTCCACTGCATCTTC
1 TCCGCTCCACTACAACTTTAGGGAGATAGGA-TTAGTAG-CTTCAGTCTACTCCACTGTAACTTC
* * * * * * * * * ** *
31056672 AAGGAAATAGGA-TTCATATCTTCAAACTTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTA
64 AGGGAGATAAGACTT-GTATCTTC-AACCTGCTCCACTGCGACCTCAGGGAGATAAGGTTTGATA
*
31056736 TGATAAGATTTAATCCGACCCTCTGCAACTTCAAAGGTATAGGATTCATCGTTTTAA
127 TGATAAGATTTAATCCAACCCTCTGCAACTTCAAAGGTATAGGATTCATCGTTTTAA
* *
31056793 TCCGCTCCACTGCAACTTTAGGGAGATAGGATTAGTAGCTTCAGTCTATTCCACTGTAACTTCAG
1 TCCGCTCCACTACAACTTTAGGGAGATAGGATTAGTAGCTTCAGTCTACTCCACTGTAACTTCAG
31056858 GGAGATAAGACTTGTATCTTCAACCTGCTCCACTGCGACCTCAGGGAGATAAGGTTTGATATGAT
66 GGAGATAAGACTTGTATCTTCAACCTGCTCCACTGCGACCTCAGGGAGATAAGGTTTGATATGAT
* *
31056923 AAGATTTAATCCAACCTTTTGCAACTTCAAAGGTATAGGATTCATCGTTTTAA
131 AAGATTTAATCCAACCCTCTGCAACTTCAAAGGTATAGGATTCATCGTTTTAA
*
31056976 TCCGCTCCACTACAACTTTAGGGAGATAGGATTAGTAGCTTCAGTCTGCTCCACTGTAACTTCAG
1 TCCGCTCCACTACAACTTTAGGGAGATAGGATTAGTAGCTTCAGTCTACTCCACTGTAACTTCAG
* *
31057041 GGAGATAAGACTTGTATCTTCAACCTGTTCCACTGTGACCTCAGGGAGATAAGGTTTGATATGAT
66 GGAGATAAGACTTGTATCTTCAACCTGCTCCACTGCGACCTCAGGGAGATAAGGTTTGATATGAT
31057106 CTGCTTTCTA
Statistics
Matches: 282, Mismatches: 29, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
183 211 0.75
184 39 0.14
185 32 0.11
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (183 bp):
TCCGCTCCACTACAACTTTAGGGAGATAGGATTAGTAGCTTCAGTCTACTCCACTGTAACTTCAG
GGAGATAAGACTTGTATCTTCAACCTGCTCCACTGCGACCTCAGGGAGATAAGGTTTGATATGAT
AAGATTTAATCCAACCCTCTGCAACTTCAAAGGTATAGGATTCATCGTTTTAA
Found at i:31057062 original size:44 final size:44
Alignment explanation
Indices: 31056979--31057093 Score: 124
Period size: 44 Copynumber: 2.6 Consensus size: 44
31056969 GTTTTAATCC
** * * **
31056979 GCTCCACTACAACTTTAGGGAGATAGGATTAGTAGCTTCAGTCT
1 GCTCCACTGTAACTTCAGGGAGATAAGATTAGTAGCTTCAACCT
*
31057023 GCTCCACTGTAACTTCAGGGAGATAAGACTT-GTATCTTCAACCT
1 GCTCCACTGTAACTTCAGGGAGATAAGA-TTAGTAGCTTCAACCT
* * *
31057067 GTTCCACTGTGACCTCAGGGAGATAAG
1 GCTCCACTGTAACTTCAGGGAGATAAG
31057094 GTTTGATATG
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 58 0.97
45 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (44 bp):
GCTCCACTGTAACTTCAGGGAGATAAGATTAGTAGCTTCAACCT
Found at i:31057587 original size:104 final size:104
Alignment explanation
Indices: 31057450--31057684 Score: 373
Period size: 104 Copynumber: 2.3 Consensus size: 104
31057440 TCAACTTGCC
* * * *
31057450 CCACTACAACTTTAAGGG-CATAAGACTTGTAATTTTCAATAAAGTCTGATGTGATCCATTCTAC
1 CCACTGCAACTTT-AGGGAAATAGGACTTATAATTTTCAATAAAGTCTGATGTGATCCATTCTAC
31057514 TGCAAATTCAGAGAGATAAGATCCATCATTTTGACCCGCT
65 TGCAAATTCAGAGAGATAAGATCCATCATTTTGACCCGCT
*
31057554 CCACTGCAACTTTAGGGAGATAGGACTTATAATTTTCAATAAAGTCTGATGTGATCCATTCTACT
1 CCACTGCAACTTTAGGGAAATAGGACTTATAATTTTCAATAAAGTCTGATGTGATCCATTCTACT
* * *
31057619 GTAACTTTAGAGAGATAAGATCCATCATTTTGACCCGCT
66 GCAAATTCAGAGAGATAAGATCCATCATTTTGACCCGCT
*
31057658 CCACTGCAACTTCAGGGAAATAGGACT
1 CCACTGCAACTTTAGGGAAATAGGACT
31057685 CGTATCTTCA
Statistics
Matches: 121, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
103 4 0.03
104 117 0.97
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (104 bp):
CCACTGCAACTTTAGGGAAATAGGACTTATAATTTTCAATAAAGTCTGATGTGATCCATTCTACT
GCAAATTCAGAGAGATAAGATCCATCATTTTGACCCGCT
Found at i:31057771 original size:44 final size:44
Alignment explanation
Indices: 31057690--31057781 Score: 112
Period size: 44 Copynumber: 2.1 Consensus size: 44
31057680 GGACTCGTAT
* *** *
31057690 CTTCAACTTGCCCCACTGCAACTTCAGGGGGATAAGGTTAGTGA
1 CTTCAACCTGCCCCACTGCAACTTCAGAAAGACAAGGTTAGTGA
* * *
31057734 CTTCAACCTGCTCTACTGCAACTTCAGAAAGACAAGGTTTGTGA
1 CTTCAACCTGCCCCACTGCAACTTCAGAAAGACAAGGTTAGTGA
31057778 CTTC
1 CTTC
31057782 GCTGATCTGT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (44 bp):
CTTCAACCTGCCCCACTGCAACTTCAGAAAGACAAGGTTAGTGA
Found at i:31058090 original size:24 final size:24
Alignment explanation
Indices: 31058054--31058112 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
31058044 ACGGATTGCC
31058054 TCCACTGTAATCTTCAAAGTTCAA
1 TCCACTGTAATCTTCAAAGTTCAA
* * *
31058078 TCCGCTGTAATCTTCAAAGTTTAG
1 TCCACTGTAATCTTCAAAGTTCAA
31058102 TCCACTGTAAT
1 TCCACTGTAAT
31058113 TTTGGGACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.36
Consensus pattern (24 bp):
TCCACTGTAATCTTCAAAGTTCAA
Found at i:31058759 original size:108 final size:108
Alignment explanation
Indices: 31058584--31058789 Score: 331
Period size: 108 Copynumber: 1.9 Consensus size: 108
31058574 GAAAAATGCT
31058584 TGAAAAAGATTATCACAATGGACAAGATGAAATTTTATTGAGAGCAAAACTCCAAACAAATAAAT
1 TGAAAAAGATTATCACAATGGACAAGATGAAATTTTATTGAGAGCAAAACTCCAAACAAATAAAT
* *
31058649 TAATCAGGATAGCAAATTTTGCTAAAATTCAAAGTGAATAAGA
66 TAATCAAGATAGCAAATTTTGCTAAAATACAAAGTGAATAAGA
* * * * * *
31058692 TGAAAAAGATTATCACAATGGACAAGATGAAATTTTGTTGAGAGCAAAGCTCGAGACGAATAGAT
1 TGAAAAAGATTATCACAATGGACAAGATGAAATTTTATTGAGAGCAAAACTCCAAACAAATAAAT
*
31058757 TAATCAAGATAGCAAATTTTGCTAGAATACAAA
66 TAATCAAGATAGCAAATTTTGCTAAAATACAAA
31058790 AATGATAATA
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
108 89 1.00
ACGTcount: A:0.47, C:0.11, G:0.17, T:0.25
Consensus pattern (108 bp):
TGAAAAAGATTATCACAATGGACAAGATGAAATTTTATTGAGAGCAAAACTCCAAACAAATAAAT
TAATCAAGATAGCAAATTTTGCTAAAATACAAAGTGAATAAGA
Found at i:31059143 original size:17 final size:16
Alignment explanation
Indices: 31059113--31059170 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 16
31059103 TTGGCCTCTC
*
31059113 CTTTTTATTTTTCTTTT
1 CTTTTT-TTATTCTTTT
31059130 CTTTTCTTTATTCTTTT
1 CTTTT-TTTATTCTTTT
*
31059147 C-TTTTTTATTTTTTT
1 CTTTTTTTATTCTTTT
31059162 CTATTTTTT
1 CT-TTTTTT
31059171 TAACATTCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
15 11 0.31
16 3 0.08
17 21 0.58
18 1 0.03
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.81
Consensus pattern (16 bp):
CTTTTTTTATTCTTTT
Found at i:31063067 original size:107 final size:107
Alignment explanation
Indices: 31062918--31063209 Score: 453
Period size: 107 Copynumber: 2.7 Consensus size: 107
31062908 TTTAAGAGGG
* *
31062918 TATTTGG-CTAAACG-AGAAATCGAAACCCAGCGCATTAGGGCACGTTTTCTCGAATTTCCAAAC
1 TATTTGGTC-AAACGAAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAAC
* *
31062981 GTAAAATATTGCCTTACTTTGAAATTTTAAAAGTATATTTGGC
65 GTAAAATATTGCCTTACTTTGAAATTTTAAAAGGATATTTGAC
* * * *
31063024 TATTTGGTCGAACGAAAAAATCAAAACCCAGCACATTATGGCACATTTTCTCGAATTTCCAAACG
1 TATTTGGTCAAACGAAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACG
31063089 TAAAATATTGCCTTACTTTGAAATTTTAAAAGGATATTTGAC
66 TAAAATATTGCCTTACTTTGAAATTTTAAAAGGATATTTGAC
* *
31063131 TATTTGGTCAAACGAAAAAATCGAAACCCAGCACATTAGGGCAAGTTTTCTCGAATTTTCAAACG
1 TATTTGGTCAAACGAAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACG
* *
31063196 CAAAATATTACCTT
66 TAAAATATTGCCTT
31063210 TATTATTTTT
Statistics
Matches: 168, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
106 11 0.07
107 157 0.93
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (107 bp):
TATTTGGTCAAACGAAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACG
TAAAATATTGCCTTACTTTGAAATTTTAAAAGGATATTTGAC
Found at i:31063768 original size:49 final size:51
Alignment explanation
Indices: 31063668--31063786 Score: 127
Period size: 51 Copynumber: 2.3 Consensus size: 51
31063658 AACGTAAAAG
* *
31063668 ATATATAAGTATGTATATATATATGTATATTAAAATTATAAAGTATAATAT
1 ATATATAAGTATGTATATATATATGTATATGAAAATTAAAAAGTATAATAT
* * *
31063719 ATATATAAGTATGTAT-TA-ATGTGTTTATGAAAA-TAAAAAGTGCATATATAG
1 ATATATAAGTATGTATATATATATGTATATGAAAATTAAAAAGT--ATA-ATAT
31063770 ATATATATAGATATGTA
1 ATATATA-AG-TATGTA
31063787 AACAAATTAT
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
48 7 0.12
49 12 0.21
50 5 0.09
51 26 0.45
52 2 0.03
53 6 0.10
ACGTcount: A:0.47, C:0.01, G:0.12, T:0.40
Consensus pattern (51 bp):
ATATATAAGTATGTATATATATATGTATATGAAAATTAAAAAGTATAATAT
Found at i:31064148 original size:3 final size:3
Alignment explanation
Indices: 31064140--31064194 Score: 85
Period size: 3 Copynumber: 18.7 Consensus size: 3
31064130 AAACTAATAC
* *
31064140 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAC AAG
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
31064187 AAT AAT AA
1 AAT AAT AA
31064195 AAAAAGACTA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
2 2 0.04
3 46 0.96
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:31070215 original size:6 final size:6
Alignment explanation
Indices: 31070206--31070246 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
31070196 AAATAAAATT
31070206 CTAAAA CTAAAA CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
1 CTAAAA CTAAAA CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
31070247 GTCTAAAAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
CTAAAA
Found at i:31070257 original size:8 final size:8
Alignment explanation
Indices: 31070244--31070270 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
31070234 AACTAAAACT
31070244 AAAGTCTA
1 AAAGTCTA
31070252 AAAGTCTA
1 AAAGTCTA
31070260 AAAGTCTA
1 AAAGTCTA
31070268 AAA
1 AAA
31070271 ATAATTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.56, C:0.11, G:0.11, T:0.22
Consensus pattern (8 bp):
AAAGTCTA
Found at i:31070341 original size:18 final size:18
Alignment explanation
Indices: 31070294--31070341 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
31070284 GTAGTGATTC
*
31070294 AATTCGGTTAATTCGGGT
1 AATTCGATTAATTCGGGT
* *
31070312 AA-TCTGAGTAATTCGGTT
1 AATTC-GATTAATTCGGGT
31070330 AATTCGATTAAT
1 AATTCGATTAAT
31070342 CAACCGAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
17 2 0.08
18 20 0.83
19 2 0.08
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (18 bp):
AATTCGATTAATTCGGGT
Found at i:31077853 original size:91 final size:91
Alignment explanation
Indices: 31077738--31077940 Score: 343
Period size: 91 Copynumber: 2.2 Consensus size: 91
31077728 TTAAATATCT
*
31077738 ATTGTATAAATTCATATAAAAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAA
1 ATTGTATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAA
* *
31077803 ATTATATTTAATATTAATTATTTTAA
66 ATTATATGTAATAATAATTATTTTAA
* *
31077829 ATTGTATAAATTTATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAA
1 ATTGTATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAA
31077894 ATTATATGTAATAATAATTATTTTAA
66 ATTATATGTAATAATAATTATTTTAA
* *
31077920 ATTATAAAAATTCATATAAGA
1 ATTGTATAAATTCATATAAGA
31077941 TAATACAGAA
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
91 104 1.00
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.46
Consensus pattern (91 bp):
ATTGTATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAA
ATTATATGTAATAATAATTATTTTAA
Found at i:31077870 original size:44 final size:44
Alignment explanation
Indices: 31077738--31077871 Score: 112
Period size: 44 Copynumber: 3.0 Consensus size: 44
31077728 TTAAATATCT
*
31077738 ATTGTATAAATTCATATAAAAAAATTTATTATCAAGAATTTTATGA
1 ATTGTATAAATTTATAT-AAAAAATTTATTATCAAGAATTTTA-GA
* * * * * **
31077784 AAT-TATATATCATTAT-TAAATTATATTTAATATTAATTATTTTA-A
1 ATTGTATAAAT--TTATATAAA--AAATTTATTATCAAGAATTTTAGA
31077829 ATTGTATAAATTTATATAAGAAAATTTATTATCAAGAATTTTA
1 ATTGTATAAATTTATATAA-AAAATTTATTATCAAGAATTTTA
31077872 TGAAATTATA
Statistics
Matches: 66, Mismatches: 15, Indels: 16
0.68 0.15 0.16
Matches are distributed among these distances:
44 21 0.32
45 15 0.23
46 10 0.15
47 20 0.30
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (44 bp):
ATTGTATAAATTTATATAAAAAATTTATTATCAAGAATTTTAGA
Found at i:31077919 original size:26 final size:28
Alignment explanation
Indices: 31077865--31077925 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
31077855 TATTATCAAG
* *
31077865 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
31077893 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
31077919 AATTATA
1 AATTATA
31077926 AAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:31077925 original size:44 final size:43
Alignment explanation
Indices: 31077783--31077925 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 43
31077773 GAATTTTATG
* *
31077783 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
31077827 AAATTGTATAAATTTATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATA-TTAT-T-ATTAAATTATATTAAT-AATAATTATT-TT
31077874 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
31077918 AAATTATA
1 AAATTATA
31077926 AAAATTCATA
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 23 0.30
45 10 0.13
46 10 0.13
47 14 0.18
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:31082369 original size:19 final size:18
Alignment explanation
Indices: 31082334--31082369 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
31082324 TTTTAAAAAA
*
31082334 ATAAAAAATATATATTTT
1 ATAAAAAATATAAATTTT
31082352 ATAAAAAATAATAAATTT
1 ATAAAAAAT-ATAAATTT
31082370 GTAAAACATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATAAAAAATATAAATTTT
Found at i:31082374 original size:18 final size:18
Alignment explanation
Indices: 31082334--31082375 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
31082324 TTTTAAAAAA
*
31082334 ATAAAAAATATATATTTT
1 ATAAAAAATATATAATTT
31082352 ATAAAAAATA-ATAAATTT
1 ATAAAAAATATAT-AATTT
*
31082370 GTAAAA
1 ATAAAA
31082376 CATTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (18 bp):
ATAAAAAATATATAATTT
Found at i:31082419 original size:19 final size:21
Alignment explanation
Indices: 31082382--31082421 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
31082372 AAAACATTAT
31082382 TAAAATTCATAAAATATTAAA
1 TAAAATTCATAAAATATTAAA
*
31082403 TAAAGTTCA-AAAA-ATTAAA
1 TAAAATTCATAAAATATTAAA
31082422 AACTAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 4 0.22
21 8 0.44
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (21 bp):
TAAAATTCATAAAATATTAAA
Found at i:31089905 original size:16 final size:16
Alignment explanation
Indices: 31089859--31089908 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
31089849 ATAAAATGTA
*
31089859 AAAATATAAAAA-GAT
1 AAAATATAAAAATTAT
*
31089874 ATATATATAAAAAATTAT
1 A-AAATAT-AAAAATTAT
31089892 AAAATATAAAAATTAT
1 AAAATATAAAAATTAT
31089908 A
1 A
31089909 TATATAAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 1 0.03
16 15 0.52
17 10 0.34
18 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (16 bp):
AAAATATAAAAATTAT
Found at i:31089923 original size:34 final size:33
Alignment explanation
Indices: 31089851--31089915 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
31089841 ATAAATAAAT
31089851 AAAATGTA-AAAATATAAAAAGATATATATATAA
1 AAAAT-TATAAAATATAAAAAGATATATATATAA
*
31089884 AAAATTATAAAATATAAAAA-TTATATATATAA
1 AAAATTATAAAATATAAAAAGATATATATATAA
31089916 GTTAAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 13 0.43
33 17 0.57
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (33 bp):
AAAATTATAAAATATAAAAAGATATATATATAA
Found at i:31092749 original size:17 final size:17
Alignment explanation
Indices: 31092727--31092769 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
31092717 TTAAAAAATA
31092727 TATAAATTTTGGAATTT
1 TATAAATTTTGGAATTT
* *
31092744 TATAAATATTTTGATTTT
1 TATAAAT-TTTGGAATTT
*
31092762 TAAAAATT
1 TATAAATT
31092770 ATTTTTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (17 bp):
TATAAATTTTGGAATTT
Found at i:31092768 original size:18 final size:19
Alignment explanation
Indices: 31092741--31092780 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
31092731 AATTTTGGAA
*
31092741 TTTTATAAA-TATTTTGAT
1 TTTTAAAAATTATTTTGAT
*
31092759 TTTTAAAAATTATTTTTAT
1 TTTTAAAAATTATTTTGAT
31092778 TTT
1 TTT
31092781 ACTTTTTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTTAAAAATTATTTTGAT
Found at i:31093500 original size:32 final size:32
Alignment explanation
Indices: 31093464--31093525 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
31093454 GTAAAACAAT
31093464 AAAATGGGTTTTAGATTCC-TTAAAAGTTAGAG
1 AAAATGGGTTTTAGA-TCCTTTAAAAGTTAGAG
***
31093496 AAAATTTTTTTTAGATCCTTTAAAAGTTAG
1 AAAATGGGTTTTAGATCCTTTAAAAGTTAG
31093526 TAAAAAAGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 3 0.12
32 23 0.88
ACGTcount: A:0.37, C:0.06, G:0.16, T:0.40
Consensus pattern (32 bp):
AAAATGGGTTTTAGATCCTTTAAAAGTTAGAG
Found at i:31093539 original size:32 final size:32
Alignment explanation
Indices: 31093472--31093539 Score: 77
Period size: 32 Copynumber: 2.1 Consensus size: 32
31093462 ATAAAATGGG
***
31093472 TTTTAGATTCCTTAAAAGTTAGAGAAAATTTT
1 TTTTAGATTCCTTAAAAGTTAGAGAAAAAGGT
31093504 TTTTAGA-TCCTTTAAAAGTTAGTA-AAAAAGGT
1 TTTTAGATTCC-TTAAAAGTTAG-AGAAAAAGGT
31093536 TTTT
1 TTTT
31093540 GAACCCTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
31 3 0.10
32 27 0.87
33 1 0.03
ACGTcount: A:0.37, C:0.06, G:0.13, T:0.44
Consensus pattern (32 bp):
TTTTAGATTCCTTAAAAGTTAGAGAAAAAGGT
Found at i:31093951 original size:3 final size:3
Alignment explanation
Indices: 31093943--31093975 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
31093933 TGACTCAAAT
*
31093943 ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
31093976 CCATAAGCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:31095680 original size:46 final size:46
Alignment explanation
Indices: 31095581--31096029 Score: 388
Period size: 46 Copynumber: 9.6 Consensus size: 46
31095571 TACATATGAT
* *
31095581 CACTTATCAC-TTGTC-CCTGATCAAATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
31095624 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* * *
31095670 CACTTATCACTTTCTCACTTGACCAGATAAGTGTAGCTAAGGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
** * ** *
31095716 CACTTATCACTTTGAGGCTAACACTT-ATCACTTTG-TCACTTGATCAGATAAGTATAG
1 CACTTATCACTTT---G-T--CACTTGATCA----GAT-AAGTG-T-AGCTAAGGCTAC
* *
31095773 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
31095819 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
31095855 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
31095901 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATC----------AGATAAGTGTAGCTAAGGCTAC
* *
31095957 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
31096003 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
31096030 AGTACTCAAA
Statistics
Matches: 339, Mismatches: 29, Indels: 73
0.77 0.07 0.17
Matches are distributed among these distances:
36 28 0.08
38 2 0.01
39 1 0.00
40 2 0.01
41 2 0.01
42 2 0.01
43 11 0.03
44 7 0.02
45 18 0.05
46 168 0.50
47 1 0.00
48 4 0.01
49 1 0.00
50 1 0.00
51 8 0.02
52 9 0.03
53 1 0.00
54 1 0.00
55 4 0.01
56 47 0.14
57 21 0.06
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:31095735 original size:21 final size:21
Alignment explanation
Indices: 31095709--31095750 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
31095699 AGTGTAGCTA
31095709 AGGCTAACACTTATCACTTTG
1 AGGCTAACACTTATCACTTTG
31095730 AGGCTAACACTTATCACTTTG
1 AGGCTAACACTTATCACTTTG
31095751 TCACTTGATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (21 bp):
AGGCTAACACTTATCACTTTG
Found at i:31095777 original size:36 final size:36
Alignment explanation
Indices: 31095737--31095891 Score: 175
Period size: 36 Copynumber: 4.0 Consensus size: 36
31095727 TTGAGGCTAA
31095737 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
31095773 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T--AG
* *
31095815 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* *
31095855 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
31095891 C
1 C
31095892 TAATGCTACC
Statistics
Matches: 103, Mismatches: 6, Indels: 20
0.80 0.05 0.16
Matches are distributed among these distances:
36 64 0.62
38 3 0.03
40 3 0.03
42 3 0.03
44 2 0.02
46 28 0.27
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:31095874 original size:82 final size:82
Alignment explanation
Indices: 31095732--31095936 Score: 365
Period size: 82 Copynumber: 2.5 Consensus size: 82
31095722 TCACTTTGAG
* *
31095732 GCTAACACTTATCACTTTGTCACTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATC
1 GCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCACTTATCACTTTTTCACTTGATC
31095797 AGATAAGTGTAGCTAAA
66 AGATAAGTGTAGCTAAA
*
31095814 GCTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCACTTATCACTTTTTCACTTGATC
1 GCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCACTTATCACTTTTTCACTTGATC
*
31095879 AGATAAGTGTAGCTAAT
66 AGATAAGTGTAGCTAAA
*
31095896 GCTACCACTTATCACTTTCTCACTTGATCAGATAAGTGTAG
1 GCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
31095937 ATAAGTGTAG
Statistics
Matches: 117, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 117 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (82 bp):
GCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCACTTATCACTTTTTCACTTGATC
AGATAAGTGTAGCTAAA
Found at i:31095940 original size:56 final size:56
Alignment explanation
Indices: 31095879--31095992 Score: 228
Period size: 56 Copynumber: 2.0 Consensus size: 56
31095869 TCACTTGATC
31095879 AGATAAGTGTAGCTAATGCTACCACTTATCACTTTCTCACTTGATCAGATAAGTGT
1 AGATAAGTGTAGCTAATGCTACCACTTATCACTTTCTCACTTGATCAGATAAGTGT
31095935 AGATAAGTGTAGCTAATGCTACCACTTATCACTTTCTCACTTGATCAGATAAGTGT
1 AGATAAGTGTAGCTAATGCTACCACTTATCACTTTCTCACTTGATCAGATAAGTGT
31095991 AG
1 AG
31095993 CTAATGCTAC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (56 bp):
AGATAAGTGTAGCTAATGCTACCACTTATCACTTTCTCACTTGATCAGATAAGTGT
Found at i:31099086 original size:24 final size:23
Alignment explanation
Indices: 31099054--31099114 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
31099044 ACATAGACAA
*
31099054 AAACTGATACTTCCCTGAAAGTGG
1 AAACTGATACTTCCCAG-AAGTGG
*
31099078 AAACTGATACTTCCCAGAGGTGG
1 AAACTGATACTTCCCAGAAGTGG
* *
31099101 AAAATGAAACTTCC
1 AAACTGATACTTCC
31099115 TAAGGGATGA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
23 17 0.52
24 16 0.48
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (23 bp):
AAACTGATACTTCCCAGAAGTGG
Found at i:31100463 original size:51 final size:51
Alignment explanation
Indices: 31100387--31100489 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
31100377 AAATAGGGTA
31100387 AGATATCCAACAATTATAAATTGCCACGTGGCATAC-ACTGATGCTATGATG
1 AGATATCCAACAATTATAAATTGCCACGTGGCATACTA-TGATGCTATGATG
31100438 AGATATCCAACAATTATAAATTGCCACGTGGCATACTATGATGCTATGATG
1 AGATATCCAACAATTATAAATTGCCACGTGGCATACTATGATGCTATGATG
31100489 A
1 A
31100490 CATCATCACT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
51 50 0.98
52 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.28
Consensus pattern (51 bp):
AGATATCCAACAATTATAAATTGCCACGTGGCATACTATGATGCTATGATG
Found at i:31110010 original size:25 final size:25
Alignment explanation
Indices: 31109948--31110017 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 25
31109938 ATTTTGAATC
31109948 CGTTTGTGAATTAATTCACTTGTGA
1 CGTTTGTGAATTAATTCACTTGTGA
31109973 CGTTTATGGTGTGAATTAATTCACTTGTGA
1 CG--T-T--TGTGAATTAATTCACTTGTGA
31110003 CGTTTGTGAATTAAT
1 CGTTTGTGAATTAAT
31110018 CATTAAGAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
25 13 0.32
27 2 0.05
28 2 0.05
30 23 0.57
ACGTcount: A:0.24, C:0.10, G:0.21, T:0.44
Consensus pattern (25 bp):
CGTTTGTGAATTAATTCACTTGTGA
Found at i:31111110 original size:3 final size:3
Alignment explanation
Indices: 31111102--31111131 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
31111092 TGCTATGATT
31111102 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
31111132 AACATACATG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:31119291 original size:6 final size:6
Alignment explanation
Indices: 31119280--31119306 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
31119270 CTATGAATGC
31119280 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
31119307 GTCATGTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:31124034 original size:29 final size:30
Alignment explanation
Indices: 31123989--31124058 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 30
31123979 TTATATTATC
*
31123989 TAAATATATTTTA-TTTTGTGATTTAA-AAAT
1 TAAA-ATATTTTATTTTTGTG-GTTAAGAAAT
31124019 TAAAATATTTTATTTTTGTGGTTAAGAAAT
1 TAAAATATTTTATTTTTGTGGTTAAGAAAT
*
31124049 TCAAATATTT
1 TAAAATATTT
31124059 GAATTTAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
29 12 0.33
30 24 0.67
ACGTcount: A:0.39, C:0.01, G:0.09, T:0.51
Consensus pattern (30 bp):
TAAAATATTTTATTTTTGTGGTTAAGAAAT
Found at i:31134551 original size:3 final size:3
Alignment explanation
Indices: 31134543--31134569 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
31134533 AGTCTTTGCT
31134543 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
31134570 ATTTCATTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:31139199 original size:22 final size:22
Alignment explanation
Indices: 31139103--31139203 Score: 114
Period size: 22 Copynumber: 4.6 Consensus size: 22
31139093 AGATTTTAGA
* **
31139103 ATCAGAAACAGAAACAGAGCAT
1 ATCAGATACAGATGCAGAGCAT
*
31139125 ATCA-AGTACTGATGCAGAGCAT
1 ATCAGA-TACAGATGCAGAGCAT
31139147 ATCAGATACAGATGCAGAGCAT
1 ATCAGATACAGATGCAGAGCAT
* * *
31139169 ATCAAATACAGATGCGGAGTAT
1 ATCAGATACAGATGCAGAGCAT
*
31139191 ATTAGATACAGAT
1 ATCAGATACAGAT
31139204 CCAAAATCCT
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
21 1 0.01
22 65 0.97
23 1 0.01
ACGTcount: A:0.44, C:0.16, G:0.21, T:0.20
Consensus pattern (22 bp):
ATCAGATACAGATGCAGAGCAT
Found at i:31139203 original size:44 final size:44
Alignment explanation
Indices: 31139103--31139203 Score: 130
Period size: 44 Copynumber: 2.3 Consensus size: 44
31139093 AGATTTTAGA
* ** * *
31139103 ATCAGAAACAGAAACAGAGCATATCAAGTACTGATGCAGAGCAT
1 ATCAGATACAGATGCAGAGCATATCAAATACAGATGCAGAGCAT
* *
31139147 ATCAGATACAGATGCAGAGCATATCAAATACAGATGCGGAGTAT
1 ATCAGATACAGATGCAGAGCATATCAAATACAGATGCAGAGCAT
*
31139191 ATTAGATACAGAT
1 ATCAGATACAGAT
31139204 CCAAAATCCT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.44, C:0.16, G:0.21, T:0.20
Consensus pattern (44 bp):
ATCAGATACAGATGCAGAGCATATCAAATACAGATGCAGAGCAT
Found at i:31139758 original size:42 final size:42
Alignment explanation
Indices: 31139701--31139783 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
31139691 CCTCACACGG
* ** *
31139701 CCTGGCACAAGGCCGTGTGGCTCAAGTCAGTGAGTTACACAT
1 CCTGACACAAGGCCGTGTAACTCAAGTCAGTGACTTACACAT
* *
31139743 CCTGACACATGGCCGTGTAACTTAAGTCAGTGACTTACACA
1 CCTGACACAAGGCCGTGTAACTCAAGTCAGTGACTTACACA
31139784 AGCTGTGCAC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.23
Consensus pattern (42 bp):
CCTGACACAAGGCCGTGTAACTCAAGTCAGTGACTTACACAT
Found at i:31142592 original size:18 final size:17
Alignment explanation
Indices: 31142565--31142599 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
31142555 GCTACAGTAA
31142565 TTAACCATTTTAATTTAG
1 TTAACCA-TTTAATTTAG
*
31142583 TTAACTATTTAATTTAG
1 TTAACCATTTAATTTAG
31142600 CAATACTGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (17 bp):
TTAACCATTTAATTTAG
Found at i:31148247 original size:12 final size:12
Alignment explanation
Indices: 31148230--31148256 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
31148220 AATAAATCAT
31148230 ATATGTATATTA
1 ATATGTATATTA
31148242 ATATGTATATTA
1 ATATGTATATTA
31148254 ATA
1 ATA
31148257 GAAAATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (12 bp):
ATATGTATATTA
Found at i:31149469 original size:21 final size:21
Alignment explanation
Indices: 31149443--31149495 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
31149433 AGTGGTGGCG
* *
31149443 GTGAGATTAGTTGCTGTAGCA
1 GTGAGATTAGATACTGTAGCA
* *
31149464 GTGAGATTGGATACTGTAGCG
1 GTGAGATTAGATACTGTAGCA
31149485 GTGAGATTAGA
1 GTGAGATTAGA
31149496 AACAATGGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.26, C:0.08, G:0.36, T:0.30
Consensus pattern (21 bp):
GTGAGATTAGATACTGTAGCA
Found at i:31150671 original size:16 final size:16
Alignment explanation
Indices: 31150650--31150682 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
31150640 AGGTATAGGA
31150650 ATTAGTGTTTCAATCT
1 ATTAGTGTTTCAATCT
31150666 ATTAGTGTTTCAATCT
1 ATTAGTGTTTCAATCT
31150682 A
1 A
31150683 CTCCACTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.48
Consensus pattern (16 bp):
ATTAGTGTTTCAATCT
Found at i:31150764 original size:51 final size:51
Alignment explanation
Indices: 31150709--31150808 Score: 128
Period size: 51 Copynumber: 2.0 Consensus size: 51
31150699 AGGAGATTAG
* * *
31150709 ACTCGCATCTACAATCTGCTCCACTGGAACTTTAAGGAAATAAGATTTGTA
1 ACTCGCAGCTACAATCTGCTCCACTGCAACTTCAAGGAAATAAGATTTGTA
** * * *
31150760 ACTCGCAGCTTTAATCTGTTCCACTGCAACTTCAGGGAATTAAGATTTG
1 ACTCGCAGCTACAATCTGCTCCACTGCAACTTCAAGGAAATAAGATTTG
31150809 CATCTCCAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (51 bp):
ACTCGCAGCTACAATCTGCTCCACTGCAACTTCAAGGAAATAAGATTTGTA
Found at i:31151255 original size:44 final size:45
Alignment explanation
Indices: 31151163--31151274 Score: 138
Period size: 44 Copynumber: 2.5 Consensus size: 45
31151153 ACTGTTCTAA
* * * * *
31151163 TGCAACTTCAGGGAAATGAGATTTGCTATCTTCAATTTGCTCCAC
1 TGCAACTTCAAGGAGATGAGATTTGCTAGCTTCAATCTGCCCCAC
*
31151208 TGCAACTTCAAGGAGATGAGATTTG-TGGCTTCAATCTGCCCCAC
1 TGCAACTTCAAGGAGATGAGATTTGCTAGCTTCAATCTGCCCCAC
*
31151252 TGCAACTTC-AGAGAGATAAGATT
1 TGCAACTTCAAG-GAGATGAGATT
31151275 CACTACTATG
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
43 2 0.03
44 34 0.58
45 23 0.39
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (45 bp):
TGCAACTTCAAGGAGATGAGATTTGCTAGCTTCAATCTGCCCCAC
Found at i:31151320 original size:190 final size:189
Alignment explanation
Indices: 31150752--31151275 Score: 771
Period size: 190 Copynumber: 2.8 Consensus size: 189
31150742 AAGGAAATAA
* * * * * *
31150752 GATTTGTAACTCGCAGCTTTAATCTGTTCCACTGCAACTTCAGGGAATTAAGATTTGC-ATCTCC
1 GATTTGTGACTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATGAGATTTGCTATCTTC
* * * *
31150816 AATCTGCTCCATTGCGACTTCAGGGAGATAAGATTGGTGGCTTCAATCTGCCCCACTGCAACTTT
66 AATTTGCTCCACTGCAACTTCAGGGAGATGAGATTGGTGGCTTCAATCTGCCCCACTGCAACTTT
*
31150881 AAAGAGATAAGATTCGCCATGGTAGATTTAATCCGACCTATTACAACTCTAAAGGTATAG
131 -AAGAGATAAGATTCGCCATGGTAGATTTAATCCGACCTACTACAACTCTAAAGGTATAG
* **
31150941 GATTTGTGACTTGTAACTTTAATCTGTTCCACTGCAACTTCAGGGAAATGAGATTCACTATCTTC
1 GATTTGTGACTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATGAGATTTGCTATCTTC
** * * ** *
31151006 AATTTGCTCCACTAAAACTTCAGGGAGATGAGATTGGTGGCTTTAATCAGTTCCACTACAACTTT
66 AATTTGCTCCACTGCAACTTCAGGGAGATGAGATTGGTGGCTTCAATCTGCCCCACTGCAACTTT
31151071 AAGGAGATAAGATTCGCCATGGTAGATTTAATCCGACCTACTACAACTCTAAAGGTATAG
131 AA-GAGATAAGATTCGCCATGGTAGATTTAATCCGACCTACTACAACTCTAAAGGTATAG
* * *
31151131 GATTTGTGACTTGTAGCTTTAAACTGTTCTAATGCAACTTCAGGGAAATGAGATTTGCTATCTTC
1 GATTTGTGACTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATGAGATTTGCTATCTTC
* * *
31151196 AATTTGCTCCACTGCAACTTCAAGGAGATGAGATTTGTGGCTTCAATCTGCCCCACTGCAACTTC
66 AATTTGCTCCACTGCAACTTCAGGGAGATGAGATTGGTGGCTTCAATCTGCCCCACTGCAACTTT
31151261 AGAGAGATAAGATTC
131 A-AGAGATAAGATTC
31151276 ACTACTATGA
Statistics
Matches: 295, Mismatches: 37, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
189 52 0.18
190 242 0.82
191 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (189 bp):
GATTTGTGACTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATGAGATTTGCTATCTTC
AATTTGCTCCACTGCAACTTCAGGGAGATGAGATTGGTGGCTTCAATCTGCCCCACTGCAACTTT
AAGAGATAAGATTCGCCATGGTAGATTTAATCCGACCTACTACAACTCTAAAGGTATAG
Found at i:31159404 original size:19 final size:20
Alignment explanation
Indices: 31159388--31159432 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
31159378 TTATGAAACT
*
31159388 TAATGCATATG-ATGAAATG
1 TAATGCAGATGAATGAAATG
31159407 TAATGCAGATGAATGAAATG
1 TAATGCAGATGAATGAAATG
31159427 -AATGCA
1 TAATGCA
31159433 AAAAGATGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.27
Consensus pattern (20 bp):
TAATGCAGATGAATGAAATG
Found at i:31162978 original size:3 final size:3
Alignment explanation
Indices: 31162970--31163046 Score: 57
Period size: 3 Copynumber: 25.3 Consensus size: 3
31162960 ATGCATAAAC
* * * * *
31162970 AAT AAT AAT AAT GAT GAA- AAT GAT AAC AAT AAT AAT GAT AAT AAC
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
31163015 AAT AAC ATT AAT AAT ATT AAT AAT GAAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT A
31163047 TAAATATTTG
Statistics
Matches: 55, Mismatches: 16, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
2 2 0.04
3 49 0.89
4 4 0.07
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:31163019 original size:24 final size:24
Alignment explanation
Indices: 31162973--31163037 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
31162963 CATAAACAAT
**
31162973 AATAATAATGATGAA-AATGATAAC
1 AATAATAATGAT-AATAACAATAAC
31162997 AATAATAATGATAATAACAATAAC
1 AATAATAATGATAATAACAATAAC
*
31163021 ATTAATAAT-ATTAATAA
1 AATAATAATGA-TAATAA
31163038 TGAATAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
23 3 0.08
24 33 0.92
ACGTcount: A:0.60, C:0.05, G:0.06, T:0.29
Consensus pattern (24 bp):
AATAATAATGATAATAACAATAAC
Found at i:31170131 original size:17 final size:18
Alignment explanation
Indices: 31170098--31170131 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
31170088 TAGTCCACAC
*
31170098 ATGTTCAATCTATTTGAA
1 ATGTTCAATCGATTTGAA
31170116 ATGTTC-ATCGATTTGA
1 ATGTTCAATCGATTTGA
31170132 TTTTATCAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (18 bp):
ATGTTCAATCGATTTGAA
Found at i:31171222 original size:11 final size:11
Alignment explanation
Indices: 31171197--31171253 Score: 55
Period size: 11 Copynumber: 5.2 Consensus size: 11
31171187 AATATTATTA
**
31171197 TTTTAGAAAAT
1 TTTTAGAATTT
31171208 TTTTA-AATTT
1 TTTTAGAATTT
*
31171218 GTTTTATATATTT
1 -TTTTAGA-ATTT
31171231 TTTTAGAATTT
1 TTTTAGAATTT
31171242 TTTTA-AATTT
1 TTTTAGAATTT
31171252 TT
1 TT
31171254 AAAAAATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
10 10 0.25
11 19 0.47
12 7 0.17
13 4 0.10
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (11 bp):
TTTTAGAATTT
Found at i:31171231 original size:21 final size:18
Alignment explanation
Indices: 31171204--31171296 Score: 62
Period size: 19 Copynumber: 4.8 Consensus size: 18
31171194 TTATTTTAGA
31171204 AAATTTTTAAATTTGTTTT
1 AAATTTTTAAATTT-TTTT
31171223 ATATATTTTTTTAGAATTTTTTT
1 A-A-A--TTTTTA-AATTTTTTT
*** *
31171246 AAATTTTTAAA-AAATAT
1 AAATTTTTAAATTTTTTT
*
31171263 AAATTTTTAAATTTTTAT
1 AAATTTTTAAATTTTTTT
*
31171281 AAATATTTTGAATTTT
1 AAAT-TTTTAAATTTT
31171297 AAAAACTATT
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
17 13 0.22
18 9 0.15
19 17 0.29
20 1 0.02
21 2 0.03
22 1 0.02
23 11 0.19
24 5 0.08
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
AAATTTTTAAATTTTTTT
Found at i:31171242 original size:10 final size:10
Alignment explanation
Indices: 31171207--31171253 Score: 58
Period size: 11 Copynumber: 4.3 Consensus size: 10
31171197 TTTTAGAAAA
31171207 TTTTTAAATT
1 TTTTTAAATT
31171217 TGTTTTATATATT
1 T-TTTTA-A-ATT
31171230 TTTTTAGAATT
1 TTTTTA-AATT
31171241 TTTTTAAATT
1 TTTTTAAATT
31171251 TTT
1 TTT
31171254 AAAAAATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
10 8 0.24
11 14 0.42
12 7 0.21
13 4 0.12
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (10 bp):
TTTTTAAATT
Found at i:31171297 original size:18 final size:18
Alignment explanation
Indices: 31171260--31171315 Score: 69
Period size: 19 Copynumber: 3.1 Consensus size: 18
31171250 TTTTAAAAAA
*
31171260 TATAAAT-TTTTAAATTTT
1 TATAAATATTTTGAA-TTT
31171278 TATAAATATTTTGAATTT
1 TATAAATATTTTGAATTT
*
31171296 TAAAAACTATTTTGAATTT
1 TATAAA-TATTTTGAATTT
31171315 T
1 T
31171316 TGCAAATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 15 0.44
19 19 0.56
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (18 bp):
TATAAATATTTTGAATTT
Found at i:31171861 original size:4 final size:4
Alignment explanation
Indices: 31171852--31171883 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
31171842 TTATAAAACG
31171852 TATT TATT TATT TATT TATT TATT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT
31171884 ACTGAAACCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TATT
Done.