Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015237.1 Kokia drynarioides strain JFW-HI SEQ_130282, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 810367
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 195 characters in sequence are not A, C, G, or T
File 3 of 3
Found at i:500968 original size:17 final size:16
Alignment explanation
Indices: 500946--501007 Score: 79
Period size: 17 Copynumber: 3.7 Consensus size: 16
500936 AATTTTAAAC
500946 TTAAATTTACAAAAAAT
1 TTAAATTTA-AAAAAAT
* *
500963 TTAAATTTTAAATAGAT
1 TTAAA-TTTAAAAAAAT
500980 TTAAATTTAAAATAAAT
1 TTAAATTTAAAA-AAAT
500997 TTAAATTTAAA
1 TTAAATTTAAA
501008 TTCTGTTTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
16 6 0.15
17 29 0.74
18 4 0.10
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (16 bp):
TTAAATTTAAAAAAAT
Found at i:503180 original size:28 final size:28
Alignment explanation
Indices: 503149--503202 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
503139 AAACATAGAA
503149 TTTTTTTTCTAAAACCATAGTCTATAAT
1 TTTTTTTTCTAAAACCATAGTCTATAAT
503177 TTTTTTTTCTAAAACCATAGTCTATA
1 TTTTTTTTCTAAAACCATAGTCTATA
503203 TAGTAATATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.04, T:0.50
Consensus pattern (28 bp):
TTTTTTTTCTAAAACCATAGTCTATAAT
Found at i:509996 original size:59 final size:59
Alignment explanation
Indices: 509931--510055 Score: 232
Period size: 59 Copynumber: 2.1 Consensus size: 59
509921 TTTTTCATAC
*
509931 TTTTTCTTACTCTTGCCTTTTTGTGTTTTTAATCATTTTCTTTTTGTTATTTTCACTTG
1 TTTTTCTTACTCTTGCCTTTTTGTGTTTTTAATCATCTTCTTTTTGTTATTTTCACTTG
*
509990 TTTTTCTTACTCTTGCCTTTTTGTGTTTTTAATCATCTTCTTTTTGTTCTTTTCACTTG
1 TTTTTCTTACTCTTGCCTTTTTGTGTTTTTAATCATCTTCTTTTTGTTATTTTCACTTG
510049 TTTTTCT
1 TTTTTCT
510056 CTTCTTTGGC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 64 1.00
ACGTcount: A:0.09, C:0.17, G:0.08, T:0.66
Consensus pattern (59 bp):
TTTTTCTTACTCTTGCCTTTTTGTGTTTTTAATCATCTTCTTTTTGTTATTTTCACTTG
Found at i:514129 original size:22 final size:22
Alignment explanation
Indices: 514104--514145 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
514094 GTACAATGAG
514104 AGAATAAAATTTACTAAAGCAT
1 AGAATAAAATTTACTAAAGCAT
514126 AGAATAAAATTTACTAAAGC
1 AGAATAAAATTTACTAAAGC
514146 GTTGTCTCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.26
Consensus pattern (22 bp):
AGAATAAAATTTACTAAAGCAT
Found at i:518601 original size:14 final size:14
Alignment explanation
Indices: 518578--518611 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
518568 ATTTTATTTT
*
518578 TTTCGGGTTTTAAG
1 TTTCGAGTTTTAAG
*
518592 TTTCGAGTTTTGAG
1 TTTCGAGTTTTAAG
518606 TTTCGA
1 TTTCGA
518612 AATACATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.09, G:0.26, T:0.50
Consensus pattern (14 bp):
TTTCGAGTTTTAAG
Found at i:518650 original size:28 final size:28
Alignment explanation
Indices: 518596--518651 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
518586 TTTAAGTTTC
* *
518596 GAGTTTTGAGTTTCGAAATACATATTTG
1 GAGTTTTGAATTTCGAAATACAAATTTG
*
518624 GAGTTTTGAATTTC-AAATTCCAAATTTG
1 GAGTTTTGAATTTCGAAA-TACAAATTTG
518652 ATGTGTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 3 0.12
28 21 0.88
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.43
Consensus pattern (28 bp):
GAGTTTTGAATTTCGAAATACAAATTTG
Found at i:521354 original size:17 final size:18
Alignment explanation
Indices: 521334--521371 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
521324 TTGTTTTATT
*
521334 TTTAATTTAGTCC-TTTA
1 TTTAATTTAGCCCATTTA
521351 TTTAATTTAGCCCATTTA
1 TTTAATTTAGCCCATTTA
521369 TTT
1 TTT
521372 TTTTTACGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.24, C:0.13, G:0.05, T:0.58
Consensus pattern (18 bp):
TTTAATTTAGCCCATTTA
Found at i:522522 original size:31 final size:32
Alignment explanation
Indices: 522487--522559 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 32
522477 AAATGGCGCC
522487 CACGTGGAA-ACACTTTTGCCAAACAAGCACA
1 CACGTGGAAGACACTTTTGCCAAACAAGCACA
*** * * *
522518 CACGTGGAAGAGTTTTTTTCCAAATAAGCGCA
1 CACGTGGAAGACACTTTTGCCAAACAAGCACA
522550 CACGTGGAAG
1 CACGTGGAAG
522560 TGCTTTTAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
31 9 0.26
32 26 0.74
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.21
Consensus pattern (32 bp):
CACGTGGAAGACACTTTTGCCAAACAAGCACA
Found at i:522851 original size:28 final size:28
Alignment explanation
Indices: 522775--522852 Score: 76
Period size: 26 Copynumber: 2.9 Consensus size: 28
522765 ATAAAATCCT
*
522775 TTATTTTTTAATAATATTTAATT-A-TG
1 TTATTTTTTAATAATATTTAATTAATTA
* * *
522801 TTA-TTTTT-AT-TTGTATAATTTAATTA
1 TTATTTTTTAATAATATTTAA-TTAATTA
522827 TTATTTTTTAATAATATTTAATTAAT
1 TTATTTTTTAATAATATTTAATTAAT
522853 CCGTCTCGAT
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
23 5 0.13
24 4 0.10
25 6 0.15
26 7 0.18
27 5 0.13
28 7 0.18
29 5 0.13
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.63
Consensus pattern (28 bp):
TTATTTTTTAATAATATTTAATTAATTA
Found at i:522949 original size:62 final size:62
Alignment explanation
Indices: 522883--523010 Score: 229
Period size: 62 Copynumber: 2.1 Consensus size: 62
522873 TATTCGTTGA
* *
522883 TAATAAAATCAAAGTTTATTTGAATATTTTTGTACACATTAGTTTTGGCATATTGTTTCATT
1 TAATAAAATCAAAGTTCATTTGAATATTTTTGAACACATTAGTTTTGGCATATTGTTTCATT
*
522945 TAATAAAATCGAAGTTCATTTGAATATTTTTGAACACATTAGTTTTGGCATATTGTTTCATT
1 TAATAAAATCAAAGTTCATTTGAATATTTTTGAACACATTAGTTTTGGCATATTGTTTCATT
523007 TAAT
1 TAAT
523011 TGAGAACCAA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.47
Consensus pattern (62 bp):
TAATAAAATCAAAGTTCATTTGAATATTTTTGAACACATTAGTTTTGGCATATTGTTTCATT
Found at i:526612 original size:21 final size:21
Alignment explanation
Indices: 526589--526652 Score: 94
Period size: 21 Copynumber: 3.0 Consensus size: 21
526579 TAAGCCTTAA
*
526589 TTTAAAATACCAAAACCCTAAT
1 TTTAAAA-ACCTAAACCCTAAT
526611 TTTAAAAACCTAAACCCTAAT
1 TTTAAAAACCTAAACCCTAAT
*
526632 TTTAAAACCCTAAA-CCTAAT
1 TTTAAAAACCTAAACCCTAAT
526652 T
1 T
526653 AAAATAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
20 7 0.17
21 26 0.65
22 7 0.17
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (21 bp):
TTTAAAAACCTAAACCCTAAT
Found at i:530547 original size:39 final size:41
Alignment explanation
Indices: 530467--530548 Score: 114
Period size: 39 Copynumber: 2.0 Consensus size: 41
530457 TAAAAAGTAT
* **
530467 TTATATTAAAAAACACTACCATAAATATAATAAATGTTTTA
1 TTATATTAAAAAACACTACAATAAATATAATAAATAATTTA
*
530508 TTATATTAAAAAGCAC-A-AATAAATATAATAAATAATTTA
1 TTATATTAAAAAACACTACAATAAATATAATAAATAATTTA
530547 TT
1 TT
530549 GTGTTAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
39 21 0.57
40 1 0.03
41 15 0.41
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (41 bp):
TTATATTAAAAAACACTACAATAAATATAATAAATAATTTA
Found at i:530806 original size:19 final size:19
Alignment explanation
Indices: 530782--530819 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
530772 AAACCTGACC
530782 CATGTAGAAAATGAGCATA
1 CATGTAGAAAATGAGCATA
530801 CATGTAGAAAATGAGCATA
1 CATGTAGAAAATGAGCATA
530820 AAATTTTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.21
Consensus pattern (19 bp):
CATGTAGAAAATGAGCATA
Found at i:531924 original size:29 final size:30
Alignment explanation
Indices: 531889--531945 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
531879 GTTTTCCGAA
**
531889 TTTATTTTCTT-AATGTTGTGAGTTCAGAT
1 TTTATTTTCTTGAATAATGTGAGTTCAGAT
*
531918 TTTATTTTTTTGAATAATGTGAGTTCAG
1 TTTATTTTCTTGAATAATGTGAGTTCAG
531946 TATATTGTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.23, C:0.05, G:0.18, T:0.54
Consensus pattern (30 bp):
TTTATTTTCTTGAATAATGTGAGTTCAGAT
Found at i:532613 original size:23 final size:23
Alignment explanation
Indices: 532554--532601 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
532544 ACTAAAAAGG
532554 AGATTGAATTCACTAACCAGATA
1 AGATTGAATTCACTAACCAGATA
532577 AGATTGAATTCACTAACCAGATA
1 AGATTGAATTCACTAACCAGATA
532600 AG
1 AG
532602 TTAATAATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.25
Consensus pattern (23 bp):
AGATTGAATTCACTAACCAGATA
Found at i:539097 original size:31 final size:35
Alignment explanation
Indices: 539059--539137 Score: 112
Period size: 31 Copynumber: 2.3 Consensus size: 35
539049 GTGAAATAGT
539059 AGAAATAAATAATTTT-AAATCAC-AAA-AAAA-A
1 AGAAATAAATAATTTTAAAATCACAAAATAAAATA
539090 AGAAATAAATAATTTTAAAAATCACAAAATAAAATA
1 AGAAATAAATAATTTT-AAAATCACAAAATAAAATA
539126 AGAAAATAAATA
1 AG-AAATAAATA
539138 TAATTTTTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
31 16 0.38
33 7 0.17
34 3 0.07
35 4 0.10
36 3 0.07
37 9 0.21
ACGTcount: A:0.68, C:0.05, G:0.04, T:0.23
Consensus pattern (35 bp):
AGAAATAAATAATTTTAAAATCACAAAATAAAATA
Found at i:540787 original size:26 final size:26
Alignment explanation
Indices: 540757--540809 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
540747 ATCGTAAATA
540757 AATGAATAGAAGGCCTTGAGCCAGTG
1 AATGAATAGAAGGCCTTGAGCCAGTG
* * * *
540783 AATGATTAGTAGGTCTTGAGCTAGTG
1 AATGAATAGAAGGCCTTGAGCCAGTG
540809 A
1 A
540810 TTAATTAGCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.26
Consensus pattern (26 bp):
AATGAATAGAAGGCCTTGAGCCAGTG
Found at i:540816 original size:26 final size:26
Alignment explanation
Indices: 540771--540865 Score: 95
Period size: 26 Copynumber: 3.7 Consensus size: 26
540761 AATAGAAGGC
* *
540771 CTTGAGCCAGTGAATGATTAGTAGGT
1 CTTGAGCCAGTGATTAATTAGTAGGT
* *
540797 CTTGAGCTAGTGATTAATTAGCAGG-
1 CTTGAGCCAGTGATTAATTAGTAGGT
* *
540822 CTTCGAGCCGGTGATTAAATAGTAGGT
1 CTT-GAGCCAGTGATTAATTAGTAGGT
*
540849 TTTGAG-CAGGTGATTAA
1 CTTGAGCCA-GTGATTAA
540866 ATAGCAGGCT
Statistics
Matches: 56, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
25 4 0.07
26 50 0.89
27 2 0.04
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.32
Consensus pattern (26 bp):
CTTGAGCCAGTGATTAATTAGTAGGT
Found at i:540886 original size:26 final size:25
Alignment explanation
Indices: 540806--540886 Score: 90
Period size: 26 Copynumber: 3.1 Consensus size: 25
540796 TCTTGAGCTA
*
540806 GTGATTAATTAGCAGGCTTCGAGCCG
1 GTGATTAAATAGCAGGCTTC-AGCCG
* * * *
540832 GTGATTAAATAGTAGGTTTTGAGCAG
1 GTGATTAAATAGCAGG-CTTCAGCCG
540858 GTGATTAAATAGCAGGCTTCATGCCG
1 GTGATTAAATAGCAGGCTTCA-GCCG
540884 GTG
1 GTG
540887 TATAGTTGAC
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
25 3 0.07
26 39 0.89
27 2 0.05
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.30
Consensus pattern (25 bp):
GTGATTAAATAGCAGGCTTCAGCCG
Found at i:541269 original size:21 final size:22
Alignment explanation
Indices: 541223--541283 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 22
541213 CGATCTAAGG
541223 AAAAATAAAAGAAACAT--AATT
1 AAAAATAAAAGAAA-ATAGAATT
541244 AAAAATAAAAGAAAATAGAATT
1 AAAAATAAAAGAAAATAGAATT
*
541266 AAAAGA-AATAGAAAATAG
1 AAAA-ATAAAAGAAAATAG
541284 GGAAGTCGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
20 2 0.06
21 14 0.39
22 19 0.53
23 1 0.03
ACGTcount: A:0.72, C:0.02, G:0.10, T:0.16
Consensus pattern (22 bp):
AAAAATAAAAGAAAATAGAATT
Found at i:541276 original size:15 final size:16
Alignment explanation
Indices: 541249--541278 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
541239 TAATTAAAAA
541249 TAAAAGAAAATAGAAT
1 TAAAAGAAAATAGAAT
541265 TAAAAG-AAATAGAA
1 TAAAAGAAAATAGAA
541279 AATAGGGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.70, C:0.00, G:0.13, T:0.17
Consensus pattern (16 bp):
TAAAAGAAAATAGAAT
Found at i:543695 original size:27 final size:27
Alignment explanation
Indices: 543660--543715 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
543650 TCAAGTTTCC
543660 TAGACAAAA-ATAAATAAATAAATAA-AA
1 TAGACAAAATATAAA-AAAT-AATAATAA
*
543687 TAGAGAAAATATAAAAAATAATAATAA
1 TAGACAAAATATAAAAAATAATAATAA
543714 TA
1 TA
543716 ATAATTGGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 5 0.19
27 16 0.62
28 5 0.19
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.21
Consensus pattern (27 bp):
TAGACAAAATATAAAAAATAATAATAA
Found at i:546498 original size:22 final size:22
Alignment explanation
Indices: 546458--546518 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
546448 CGATCTAAAG
*
546458 AAAAATAAAAG-AAACAGAATT
1 AAAAATAAAAGAAAATAGAATT
546479 AAAAATAAAAGAAAATAGAATT
1 AAAAATAAAAGAAAATAGAATT
*
546501 AAAAGA-AATAGAAAATAG
1 AAAA-ATAAAAGAAAATAG
546519 GGAAGTCGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
21 11 0.31
22 24 0.67
23 1 0.03
ACGTcount: A:0.72, C:0.02, G:0.11, T:0.15
Consensus pattern (22 bp):
AAAAATAAAAGAAAATAGAATT
Found at i:546509 original size:15 final size:16
Alignment explanation
Indices: 546484--546513 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
546474 GAATTAAAAA
546484 TAAAAGAAAATAGAAT
1 TAAAAGAAAATAGAAT
546500 TAAAAG-AAATAGAA
1 TAAAAGAAAATAGAA
546514 AATAGGGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.70, C:0.00, G:0.13, T:0.17
Consensus pattern (16 bp):
TAAAAGAAAATAGAAT
Found at i:553470 original size:30 final size:31
Alignment explanation
Indices: 553415--553480 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 31
553405 AGAGGATCGC
*
553415 TTTGTCACTTTTCAATAACTTTAGTGACTGT
1 TTTGTCACTTTTCAATAACTTTAGTGACTAT
*
553446 TTTGTCACATTTTC-A-AAGTTTAGTGACTAT
1 TTTGTCAC-TTTTCAATAACTTTAGTGACTAT
553476 TTTGT
1 TTTGT
553481 TAAATGTAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
30 18 0.56
31 9 0.28
32 5 0.16
ACGTcount: A:0.23, C:0.14, G:0.14, T:0.50
Consensus pattern (31 bp):
TTTGTCACTTTTCAATAACTTTAGTGACTAT
Found at i:556082 original size:20 final size:20
Alignment explanation
Indices: 556057--556094 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
556047 TACTCAAATT
556057 ATGTAAATAAATAAAATTTA
1 ATGTAAATAAATAAAATTTA
556077 ATGTAAATAAATAAAATT
1 ATGTAAATAAATAAAATT
556095 ATTCCTTGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (20 bp):
ATGTAAATAAATAAAATTTA
Found at i:556365 original size:2 final size:2
Alignment explanation
Indices: 556358--556383 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
556348 TAAGAGAATT
556358 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
556384 ATTAGGCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:566636 original size:12 final size:12
Alignment explanation
Indices: 566621--566666 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
566611 ATAACAAAAA
566621 TTTTTTTTCTTC
1 TTTTTTTTCTTC
566633 TTTTCTTTTC-TC
1 TTTT-TTTTCTTC
*
566645 TTTTCTTT-TTC
1 TTTTTTTTCTTC
566656 TTTCTTTTTCT
1 TTT-TTTTTCT
566667 CATTTTCCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
11 8 0.29
12 14 0.50
13 6 0.21
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTTTTCTTC
Found at i:566656 original size:23 final size:24
Alignment explanation
Indices: 566620--566680 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 24
566610 TATAACAAAA
*
566620 ATTTTTTTTCTTCTTT-TCTTTTCTC
1 ATTTTCTTT-TTCTTTCT-TTTTCTC
566645 -TTTTCTTTTTCTTTCTTTTTCTC
1 ATTTTCTTTTTCTTTCTTTTTCTC
566668 ATTTTCCTTTTTC
1 ATTTT-CTTTTTC
566681 AAGTGACTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
23 13 0.41
24 12 0.38
25 7 0.22
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.75
Consensus pattern (24 bp):
ATTTTCTTTTTCTTTCTTTTTCTC
Found at i:566678 original size:30 final size:29
Alignment explanation
Indices: 566621--566678 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
566611 ATAACAAAAA
566621 TTTTTTTTCTTCTTTTCTTTTCTCTTTTC
1 TTTTTTTTCTTCTTTTCTTTTCTCTTTTC
566650 TTTTTCTTTCTT-TTTCTCATTTTC-CTTTT
1 TTTTT-TTTCTTCTTT-TC-TTTTCTCTTTT
566679 TCAAGTGACT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 8 0.31
30 13 0.50
31 5 0.19
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.78
Consensus pattern (29 bp):
TTTTTTTTCTTCTTTTCTTTTCTCTTTTC
Found at i:571946 original size:34 final size:34
Alignment explanation
Indices: 571882--571947 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
571872 AAATATATGG
* *
571882 AAATGCAATGACAATGTAGATGTAGCGACAATAA
1 AAATGCAATGACAATATAGATGCAGCGACAATAA
* *
571916 AAATGCAATGACATTAATA-ATGCAGGGACAAT
1 AAATGCAATGACAAT-ATAGATGCAGCGACAAT
571948 TATACTACAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 25 0.93
35 2 0.07
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.21
Consensus pattern (34 bp):
AAATGCAATGACAATATAGATGCAGCGACAATAA
Found at i:575930 original size:24 final size:24
Alignment explanation
Indices: 575903--575954 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
575893 TGAACATTTT
575903 TTTTCCTTTC-TTTTCTC-TTTTCTC
1 TTTT-CTTTCTTTTTCTCATTTTC-C
575927 TTTTCTTTCTTTTTCTCATTTTCC
1 TTTTCTTTCTTTTTCTCATTTTCC
575951 TTTT
1 TTTT
575955 TCAAGTGACT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 5 0.19
24 16 0.62
25 5 0.19
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.73
Consensus pattern (24 bp):
TTTTCTTTCTTTTTCTCATTTTCC
Found at i:575948 original size:18 final size:19
Alignment explanation
Indices: 575909--575954 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 19
575899 TTTTTTTTCC
575909 TTTCTTTTCTCTTTTCTCT
1 TTTCTTTTCTCTTTTCTCT
575928 TTTC-TTTCT-TTTTCTCAT
1 TTTCTTTTCTCTTTTCTC-T
575946 TTTCCTTTT
1 TTT-CTTTT
575955 TCAAGTGACT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 7 0.29
18 9 0.38
19 5 0.21
20 3 0.12
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTCTTTTCTCTTTTCTCT
Found at i:576551 original size:17 final size:17
Alignment explanation
Indices: 576512--576558 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
576502 ATATATATGG
*
576512 AAATGCAGTGACAAAGT
1 AAATGCAGTGACAAAGA
*
576529 AGATGCAGTGACAATA-A
1 AAATGCAGTGACAA-AGA
*
576546 AAATGCAATGACA
1 AAATGCAGTGACA
576559 TTAATAATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 24 0.96
18 1 0.04
ACGTcount: A:0.49, C:0.13, G:0.21, T:0.17
Consensus pattern (17 bp):
AAATGCAGTGACAAAGA
Found at i:586725 original size:30 final size:30
Alignment explanation
Indices: 586699--586763 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
586689 ATCACCATCG
*
586699 CCACCACAAGAAGAAAAGCATCCACCACCA
1 CCACCACAAGAAGAAAAACATCCACCACCA
* * *
586729 CCACCACTAGGAGAAAAACATTCACCACCA
1 CCACCACAAGAAGAAAAACATCCACCACCA
586759 CCACC
1 CCACC
586764 GGAAAAAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.43, C:0.42, G:0.09, T:0.06
Consensus pattern (30 bp):
CCACCACAAGAAGAAAAACATCCACCACCA
Found at i:586921 original size:24 final size:24
Alignment explanation
Indices: 586879--586924 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
586869 CACTCCAACA
***
586879 CAACAATCACCATTGTCTCCTACC
1 CAACAATCACCACCATCTCCTACC
586903 CAACAATCACCACCATCTCCTA
1 CAACAATCACCACCATCTCCTA
586925 GCCCTCTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.33, C:0.43, G:0.02, T:0.22
Consensus pattern (24 bp):
CAACAATCACCACCATCTCCTACC
Found at i:586945 original size:33 final size:33
Alignment explanation
Indices: 586903--586988 Score: 154
Period size: 33 Copynumber: 2.6 Consensus size: 33
586893 GTCTCCTACC
*
586903 CAACAATCACCACCATCTCCTAGCCCTCTTAAG
1 CAACAATCACCACCATCTCCTAACCCTCTTAAG
586936 CAACAATCACCACCATCTCCTAACCCTCTTAAG
1 CAACAATCACCACCATCTCCTAACCCTCTTAAG
*
586969 CAACAATCTCCACCATCTCC
1 CAACAATCACCACCATCTCC
586989 CAATAGCCCT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.31, C:0.44, G:0.03, T:0.21
Consensus pattern (33 bp):
CAACAATCACCACCATCTCCTAACCCTCTTAAG
Found at i:590148 original size:43 final size:42
Alignment explanation
Indices: 590049--590151 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 42
590039 TTAAGCTCAA
* * * * *
590049 TTGTATCATACTTTTGGTTCATTAGTGAGATCATATTATTAG
1 TTGTATCAAACTTTTGATCCACTAGTAAGATCATATTATTAG
* * ** *
590091 TTGTGTCGAACTTTTGATCCACTAGTAAGATTGTATTATTTAT
1 TTGTATCAAACTTTTGATCCACTAGTAAGATCATATTA-TTAG
590134 TTGTATCAAACTTTTGAT
1 TTGTATCAAACTTTTGAT
590152 TCAAAATCAA
Statistics
Matches: 48, Mismatches: 12, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
42 29 0.60
43 19 0.40
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.48
Consensus pattern (42 bp):
TTGTATCAAACTTTTGATCCACTAGTAAGATCATATTATTAG
Found at i:590822 original size:2 final size:2
Alignment explanation
Indices: 590811--590849 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
590801 CTTAAAATGA
590811 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
590850 TCATACGTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:592962 original size:56 final size:57
Alignment explanation
Indices: 592876--592988 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 57
592866 TTCCGATGAA
592876 AAACTCATTTATTTAACATAATCTAGTAATTTATA-TTTTTTCTTTTCTCTCAGTTT
1 AAACTCATTTATTTAACATAATCTAGTAATTTATATTTTTTTCTTTTCTCTCAGTTT
592932 AAACTCATTTATTTAACATAATCTAGTAATTTATATTTTTTTCTTTTCTCTCAGTTT
1 AAACTCATTTATTTAACATAATCTAGTAATTTATATTTTTTTCTTTTCTCTCAGTTT
592989 GTGAGGGTAG
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
56 35 0.62
57 21 0.38
ACGTcount: A:0.28, C:0.14, G:0.04, T:0.54
Consensus pattern (57 bp):
AAACTCATTTATTTAACATAATCTAGTAATTTATATTTTTTTCTTTTCTCTCAGTTT
Found at i:600229 original size:19 final size:18
Alignment explanation
Indices: 600201--600238 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
600191 ATATTTATAC
*
600201 ATAAAGTCTTCTAGAGAG
1 ATAAAGTCTTCAAGAGAG
600219 ATAACAGTCTTCAAGAGAG
1 ATAA-AGTCTTCAAGAGAG
600238 A
1 A
600239 GAATAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.42, C:0.13, G:0.21, T:0.24
Consensus pattern (18 bp):
ATAAAGTCTTCAAGAGAG
Found at i:606561 original size:29 final size:30
Alignment explanation
Indices: 606531--606847 Score: 290
Period size: 30 Copynumber: 10.8 Consensus size: 30
606521 TCAAATAATT
* * * * *
606531 GGGGTTAAAATATGATTTTAGAAAAGTTTG
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTA
* ** *
606561 GGGGTGAAAACATGATTTT-GAAAAGGTTTA
1 GGGGTCAAAATGTAATTTTGGAAAA-GTTTA
*
606591 -GGGTCAAAATGTGATTTTGGAAAAGTTTA
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTA
* * *
606620 GGAGTCAAAATATAATTTTAG-AAAGTTTA
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTA
* * **
606649 AGGGTCCAAACATAATTTTGGAAAAGTTTA
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTA
* *
606679 -GGGTCAAAATGCAATTTTGGAGAAGTTT-
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTA
* * * *
606707 -GAGT--TAATATAATTTTGGGAAAGTTTA
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTA
* *
606734 GGGGTCAAAATGTAATTTGGGAAAAGTTTG
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTA
* *
606764 GGGGTTAAAATGTAATTTAGGAAAAGTTTA
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTA
* * *
606794 GGGGTTAAAATGTAATTTTGGAAAAGCTGA
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTA
*
606824 GGGGTCAAAATGTAATTTTAGAAA
1 GGGGTCAAAATGTAATTTTGGAAA
606848 TAAAAAGGTG
Statistics
Matches: 239, Mismatches: 40, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
26 17 0.07
28 6 0.03
29 72 0.30
30 144 0.60
ACGTcount: A:0.38, C:0.03, G:0.26, T:0.33
Consensus pattern (30 bp):
GGGGTCAAAATGTAATTTTGGAAAAGTTTA
Found at i:606638 original size:59 final size:58
Alignment explanation
Indices: 606532--606847 Score: 264
Period size: 59 Copynumber: 5.4 Consensus size: 58
606522 CAAATAATTG
* * * * * ** *
606532 GGGTTAAAATATGATTTTAGAAAAGTTTGGGGGTGAAAACATGATTTTGAAAAGGTTTA
1 GGGTCAAAATATAATTTTGGAAAAGTTTAGGGGTCAAAATGTAATTTTGAAAA-GTTTA
* * * *
606591 GGGTCAAAATGTGATTTTGGAAAAGTTTAGGAGTCAAAATATAATTTT-AGAAAGTTTAA
1 GGGTCAAAATATAATTTTGGAAAAGTTTAGGGGTCAAAATGTAATTTTGA-AAAGTTT-A
* * * *
606650 GGGTCCAAACATAATTTTGGAAAAGTTTA-GGGTCAAAATGCAATTTTGGAGAAGTTT-
1 GGGTCAAAATATAATTTTGGAAAAGTTTAGGGGTCAAAATGTAATTTT-GAAAAGTTTA
* * * * *
606707 GAGT--TAATATAATTTTGGGAAAGTTTAGGGGTCAAAATGTAATTTGGGAAAAGTTTGG
1 GGGTCAAAATATAATTTTGGAAAAGTTTAGGGGTCAAAATGTAATTT-TGAAAAGTTT-A
* * * * * *
606765 GGGTTAAAATGTAATTTAGGAAAAGTTTAGGGGTTAAAATGTAATTTTGGAAAAGCTGA
1 GGGTCAAAATATAATTTTGGAAAAGTTTAGGGGTCAAAATGTAATTTT-GAAAAGTTTA
* *
606824 GGGGTCAAAATGTAATTTTAGAAA
1 -GGGTCAAAATATAATTTTGGAAA
606848 TAAAAAGGTG
Statistics
Matches: 209, Mismatches: 36, Indels: 23
0.78 0.13 0.09
Matches are distributed among these distances:
55 20 0.10
56 24 0.11
57 3 0.01
58 23 0.11
59 75 0.36
60 64 0.31
ACGTcount: A:0.38, C:0.03, G:0.26, T:0.33
Consensus pattern (58 bp):
GGGTCAAAATATAATTTTGGAAAAGTTTAGGGGTCAAAATGTAATTTTGAAAAGTTTA
Found at i:607794 original size:27 final size:26
Alignment explanation
Indices: 607764--607814 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
607754 TTTAAATCTG
*
607764 TTTTTAATAT-TTTTATATTTATTTAC
1 TTTTTTATATATTTTATATTT-TTTAC
*
607790 TTTTTTATTTATTTTATATTTTTTA
1 TTTTTTATATATTTTATATTTTTTA
607815 AACTCGAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.75
Consensus pattern (26 bp):
TTTTTTATATATTTTATATTTTTTAC
Found at i:614747 original size:28 final size:29
Alignment explanation
Indices: 614706--614856 Score: 134
Period size: 29 Copynumber: 5.3 Consensus size: 29
614696 AATTAGCCAT
* **
614706 AAGGAATTCTTTT-ACAGAGATTGCTGCA
1 AAGGCATTCTTTTAACAGAGATTGCCACA
* *
614734 AAGGCATTCATTTAACAGAGATCGCCACA
1 AAGGCATTCTTTTAACAGAGATTGCCACA
*
614763 AAGGCATTTCTTTT-ACAGAGATTACCACA
1 AAGGCA-TTCTTTTAACAGAGATTGCCACA
* * *
614792 AATGCATTCTTTTAACAGAGATCGCAACA
1 AAGGCATTCTTTTAACAGAGATTGCCACA
*
614821 AAGG-AGTTTCCTTTT---AGAGCTTGCCACA
1 AAGGCA--TT-CTTTTAACAGAGATTGCCACA
614849 AAGGCATT
1 AAGGCATT
614857 TCCTTTCAAA
Statistics
Matches: 100, Mismatches: 16, Indels: 15
0.76 0.12 0.11
Matches are distributed among these distances:
27 2 0.02
28 33 0.33
29 52 0.52
30 8 0.08
31 5 0.05
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (29 bp):
AAGGCATTCTTTTAACAGAGATTGCCACA
Found at i:614806 original size:58 final size:58
Alignment explanation
Indices: 614712--614856 Score: 179
Period size: 58 Copynumber: 2.5 Consensus size: 58
614702 CCATAAGGAA
* ** *
614712 TTCTTTTACAGAGATTGCTGCAAAGGCATTCATTTAACAGAGATCGCCACAAAGGCAT
1 TTCTTTTACAGAGATTACCACAAAGGCATTCATTTAACAGAGATCGCAACAAAGGCAT
* *
614770 TTCTTTTACAGAGATTACCACAAATGCATTCTTTTAACAGAGATCGCAACAAAGG-AGT
1 TTCTTTTACAGAGATTACCACAAAGGCATTCATTTAACAGAGATCGCAACAAAGGCA-T
* *
614828 TTCCTTTT--AGAGCTTGCCACAAAGGCATT
1 TT-CTTTTACAGAGATTACCACAAAGGCATT
614857 TCCTTTCAAA
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
57 19 0.25
58 52 0.68
59 5 0.07
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (58 bp):
TTCTTTTACAGAGATTACCACAAAGGCATTCATTTAACAGAGATCGCAACAAAGGCAT
Found at i:614858 original size:28 final size:28
Alignment explanation
Indices: 614712--614880 Score: 114
Period size: 29 Copynumber: 5.9 Consensus size: 28
614702 CCATAAGGAA
**
614712 TTCTTTTACAGAGATTGCTGCAAAGGCA-
1 TTCTTTTA-AGAGATTGCCACAAAGGCAT
* *
614740 TTCATTTAACAGAGATCGCCACAAAGGCAT
1 TTC-TTTTA-AGAGATTGCCACAAAGGCAT
* *
614770 TTCTTTTACAGAGATTACCACAAATGCA-
1 TTCTTTTA-AGAGATTGCCACAAAGGCAT
* *
614798 TTCTTTTAACAGAGATCGCAACAAAGG-AGT
1 TTCTTTT-A-AGAGATTGCCACAAAGGCA-T
*
614828 TTCCTTTT-AGAGCTTGCCACAAAGGCAT
1 TT-CTTTTAAGAGATTGCCACAAAGGCAT
* *
614856 TTCCTTTCAA-AGGTTCGCCACAAAG
1 TT-CTTTTAAGAGATT-GCCACAAAG
614881 ACTTATCTTT
Statistics
Matches: 115, Mismatches: 17, Indels: 17
0.77 0.11 0.11
Matches are distributed among these distances:
28 37 0.32
29 68 0.59
30 5 0.04
31 5 0.04
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (28 bp):
TTCTTTTAAGAGATTGCCACAAAGGCAT
Found at i:614880 original size:29 final size:29
Alignment explanation
Indices: 614755--614948 Score: 91
Period size: 28 Copynumber: 6.8 Consensus size: 29
614745 TTAACAGAGA
* * *
614755 TCGCCACAAAGGCATTTCTTTTACAGAGAT
1 TCGCCACAAAGGCATTTCCTTT-CAAAGGT
* * * *
614785 T-ACCACAAATGCA-TT-CTTTTAACAGAGA
1 TCGCCACAAAGGCATTTCCTTTCAA-AG-GT
* * * *
614813 TCGCAACAAAGG-AGTTTCCTTTTAGAGCT
1 TCGCCACAAAGGCA-TTTCCTTTCAAAGGT
614842 T-GCCACAAAGGCATTTCCTTTCAAAGGT
1 TCGCCACAAAGGCATTTCCTTTCAAAGGT
* *
614870 TCGCCACAAAGAC-TTAT-CTTTCTAAA-CT
1 TCGCCACAAAGGCATT-TCCTTTC-AAAGGT
** * * *
614898 TTTCCACAGAGGTATTTCCTTTCAGAGGT
1 TCGCCACAAAGGCATTTCCTTTCAAAGGT
* *
614927 TCGCCACAAGGGC-TTACCTTTC
1 TCGCCACAAAGGCATTTCCTTTC
614949 CAGAGTTTTC
Statistics
Matches: 119, Mismatches: 32, Indels: 28
0.66 0.18 0.16
Matches are distributed among these distances:
26 1 0.01
27 5 0.04
28 53 0.45
29 49 0.41
30 5 0.04
31 6 0.05
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (29 bp):
TCGCCACAAAGGCATTTCCTTTCAAAGGT
Found at i:614958 original size:57 final size:57
Alignment explanation
Indices: 614844--614965 Score: 154
Period size: 57 Copynumber: 2.1 Consensus size: 57
614834 TTAGAGCTTG
* * *
614844 CCACAAAGGCATTTCCTTTCAAAGGTTCGCCACAAAGACTTATCTTTCTAAACTTTT
1 CCACAGAGGCATTTCCTTTCAAAGGTTCGCCACAAAGACTTACCTTTCCAAACTTTT
* * * * * *
614901 CCACAGAGGTATTTCCTTTCAGAGGTTCGCCACAAGGGCTTACCTTTCCAGAGTTTT
1 CCACAGAGGCATTTCCTTTCAAAGGTTCGCCACAAAGACTTACCTTTCCAAACTTTT
*
614958 CCATAGAG
1 CCACAGAG
614966 ATGATTCTAC
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.31
Consensus pattern (57 bp):
CCACAGAGGCATTTCCTTTCAAAGGTTCGCCACAAAGACTTACCTTTCCAAACTTTT
Found at i:616745 original size:50 final size:52
Alignment explanation
Indices: 616588--616769 Score: 260
Period size: 52 Copynumber: 3.5 Consensus size: 52
616578 TAAATGAAAA
616588 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTATG
*
616640 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTCATGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTATG
* * * * * * *
616692 AGGTCCGGTGACTATGT-T-ATCGTGAGTGTATGATTCCTTTACGAAATAAG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTATG
* *
616742 AGGTCTGATGACTATGTGACATCGTGAG
1 AGGTCCGATGACTATGTGTCATCGTGAG
616770 CATTAAATGA
Statistics
Matches: 116, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
50 40 0.34
51 1 0.01
52 75 0.65
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.34
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTATG
Found at i:631860 original size:50 final size:50
Alignment explanation
Indices: 631806--631959 Score: 141
Period size: 50 Copynumber: 3.1 Consensus size: 50
631796 GGTGAATCCA
* *
631806 GTACCGTGAAGATAATAGAGGGAAAGGTTTAAGTCGCAACGGCAAACCTT
1 GTACCGTGAAGATAATAGAGGGAAAGGTTTAAGTCACAACGGCGAACCTT
* * ** * * * * * *
631856 GTACC-TCAAAAGCA-AGAAGGAAAAGATTTAAGCCATAACGGCGAATCTA
1 GTACCGTGAAGATAATAG-AGGGAAAGGTTTAAGTCACAACGGCGAACCTT
* * *
631905 GTACCGCGACGATAATGGAGGGAAAGGTTTAAGTCACAACGGCGAACCTT
1 GTACCGTGAAGATAATAGAGGGAAAGGTTTAAGTCACAACGGCGAACCTT
*
631955 ATACC
1 GTACC
631960 TCAAAAAAAT
Statistics
Matches: 75, Mismatches: 26, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
48 2 0.03
49 34 0.45
50 38 0.51
51 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.18
Consensus pattern (50 bp):
GTACCGTGAAGATAATAGAGGGAAAGGTTTAAGTCACAACGGCGAACCTT
Found at i:631945 original size:99 final size:99
Alignment explanation
Indices: 631771--632013 Score: 317
Period size: 99 Copynumber: 2.5 Consensus size: 99
631761 CATGAAGACG
* * * *
631771 TGAAGGGAAAGATTTAAGCCGCGACGGTGAATCCAGTACCGTGAAGATAATAGAGGGAAAGGTTT
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCGCGAAGATAATAGAGGGAAAGGTTT
* * *
631836 AAGTCGCAACGGCAAACCTTGTACCTCAAAAGCAA
66 AAGTCACAACGGCAAACCTTATACCTCAAAA-AAA
* ** * *
631871 -GAAGGAAAAGATTTAAGCCATAACGGCGAATCTAGTACCGCGACGATAATGGAGGGAAAGGTTT
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCGCGAAGATAATAGAGGGAAAGGTTT
*
631935 AAGTCACAACGGCGAACCTTATACCTCAAAAAAA
66 AAGTCACAACGGCAAACCTTATACCTCAAAAAAA
* * * *
631969 TGAAGGGAAAGATTTGAGCCGCAATGGCGAGTCTAGTACCACGAA
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCGCGAA
632014 AACATTGTAA
Statistics
Matches: 121, Mismatches: 21, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
98 2 0.02
99 119 0.98
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.18
Consensus pattern (99 bp):
TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCGCGAAGATAATAGAGGGAAAGGTTT
AAGTCACAACGGCAAACCTTATACCTCAAAAAAA
Found at i:637521 original size:18 final size:18
Alignment explanation
Indices: 637498--637534 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
637488 TAAATTAATT
637498 TTAAATATGGTTCTAAAA
1 TTAAATATGGTTCTAAAA
*
637516 TTAAATATGGTTGTAAAA
1 TTAAATATGGTTCTAAAA
637534 T
1 T
637535 ATTTGATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.43, C:0.03, G:0.14, T:0.41
Consensus pattern (18 bp):
TTAAATATGGTTCTAAAA
Found at i:638116 original size:26 final size:24
Alignment explanation
Indices: 638071--638119 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
638061 AAAATTTTCA
* *
638071 ATTAAATAAAAATTATATAAAATT
1 ATTAAATAAAAATAAAATAAAATT
638095 ATTAAATATTAAAATAAAATAAAAT
1 ATTAAATA--AAAATAAAATAAAAT
638120 AAGTATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 8 0.38
26 13 0.62
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (24 bp):
ATTAAATAAAAATAAAATAAAATT
Found at i:647174 original size:19 final size:19
Alignment explanation
Indices: 647150--647186 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
647140 TATGTACGGG
* *
647150 TTTATGCGCTAGGATGCAC
1 TTTATGCACCAGGATGCAC
647169 TTTATGCACCAGGATGCA
1 TTTATGCACCAGGATGCA
647187 TTTCGTGTGC
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:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (19 bp):
TTTATGCACCAGGATGCAC
Found at i:650092 original size:21 final size:20
Alignment explanation
Indices: 650050--650091 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
650040 AGTGAAACTT
650050 AATTTTTTTATTAAAAATAA
1 AATTTTTTTATTAAAAATAA
650070 AATTTTTTTATTAAAAATAA
1 AATTTTTTTATTAAAAATAA
650090 AA
1 AA
650092 AATTAAAGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
AATTTTTTTATTAAAAATAA
Found at i:662020 original size:16 final size:17
Alignment explanation
Indices: 661999--662031 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
661989 GTAATTTTAT
*
661999 TTTTATTAATT-TAAAA
1 TTTTATAAATTATAAAA
662015 TTTTATAAATTATAAAA
1 TTTTATAAATTATAAAA
662032 AAAATTCAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTTATAAATTATAAAA
Found at i:662244 original size:2 final size:2
Alignment explanation
Indices: 662237--662261 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
662227 AAAATAATTG
662237 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
662262 AAAGAAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:662973 original size:21 final size:23
Alignment explanation
Indices: 662947--662988 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
662937 TATAGTCTAT
*
662947 TATAAAA-TA-TATATTATATGC
1 TATAAAAGTATTATAATATATGC
662968 TATAAAAGTATTATAATATAT
1 TATAAAAGTATTATAATATAT
662989 TTATTTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 2 0.11
23 9 0.50
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (23 bp):
TATAAAAGTATTATAATATATGC
Found at i:663598 original size:24 final size:25
Alignment explanation
Indices: 663548--663602 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 25
663538 CATTAAAAAT
* *
663548 AAATAAATTTAATTAAGATAGTTAC
1 AAATAAATTTAATTAAAATAATTAC
663573 AAATAAA-TTAA-TAAAATAATTA-
1 AAATAAATTTAATTAAAATAATTAC
663595 ACAATAAA
1 A-AATAAA
663603 ACATAAGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 1 0.04
23 15 0.56
24 4 0.15
25 7 0.26
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.31
Consensus pattern (25 bp):
AAATAAATTTAATTAAAATAATTAC
Found at i:663744 original size:22 final size:22
Alignment explanation
Indices: 663719--663788 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 22
663709 AAATAATACG
663719 AAAACAGCAACCAAAACAAAAA
1 AAAACAGCAACCAAAACAAAAA
*
663741 AAAACAAC-A-CAAAA-AAAGCAA
1 AAAACAGCAACCAAAACAAA--AA
* *
663762 AAAATAGCAACCAAAACAGTAAA
1 AAAACAGCAACCAAAACA-AAAA
663785 AAAA
1 AAAA
663789 GGCACAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
19 3 0.08
20 5 0.13
21 9 0.24
22 8 0.21
23 11 0.29
24 1 0.03
25 1 0.03
ACGTcount: A:0.73, C:0.19, G:0.06, T:0.03
Consensus pattern (22 bp):
AAAACAGCAACCAAAACAAAAA
Found at i:663945 original size:17 final size:18
Alignment explanation
Indices: 663909--663948 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
663899 ATGAGTTTAT
*
663909 TTTTTTGTCTAAGCCCCA
1 TTTTTTGTCTAAGACCCA
*
663927 TTTTTTGTCTAA-ACTCA
1 TTTTTTGTCTAAGACCCA
663944 TTTTT
1 TTTTT
663949 AAGGTCTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.17, C:0.20, G:0.07, T:0.55
Consensus pattern (18 bp):
TTTTTTGTCTAAGACCCA
Found at i:666440 original size:22 final size:22
Alignment explanation
Indices: 666414--666457 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
666404 AAAATTTTGA
666414 ATTTTATGAATTATTT-TATTTT
1 ATTTTATGAATT-TTTGTATTTT
*
666436 ATTTTTTGAATTTTTGTATTTT
1 ATTTTATGAATTTTTGTATTTT
666458 TAATAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (22 bp):
ATTTTATGAATTTTTGTATTTT
Found at i:667290 original size:17 final size:17
Alignment explanation
Indices: 667268--667300 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
667258 TGGGTTCAAA
667268 TTTTATTATT-TAAATAT
1 TTTTATT-TTCTAAATAT
667285 TTTTATTTTCTAAATA
1 TTTTATTTTCTAAATA
667301 AAAAATATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTATTTTCTAAATAT
Found at i:673574 original size:28 final size:29
Alignment explanation
Indices: 673530--673587 Score: 100
Period size: 28 Copynumber: 2.0 Consensus size: 29
673520 CAGAAGAATT
673530 TATGGTGACATCAGATGAAGATTTTCTAG
1 TATGGTGACATCAGATGAAGATTTTCTAG
*
673559 TATGGT-ACATCGGATGAAGATTTTCTAG
1 TATGGTGACATCAGATGAAGATTTTCTAG
673587 T
1 T
673588 TGACTGTGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 22 0.79
29 6 0.21
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.36
Consensus pattern (29 bp):
TATGGTGACATCAGATGAAGATTTTCTAG
Found at i:696601 original size:30 final size:30
Alignment explanation
Indices: 696567--696627 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
696557 ATCCAACATT
696567 TGCAAGTAACATTAAAATTTGCCAAAAACA
1 TGCAAGTAACATTAAAATTTGCCAAAAACA
*
696597 TGCAAGTAGCATTAAAATTTGCCAAAAACA
1 TGCAAGTAACATTAAAATTTGCCAAAAACA
696627 T
1 T
696628 ATAAACCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.48, C:0.16, G:0.11, T:0.25
Consensus pattern (30 bp):
TGCAAGTAACATTAAAATTTGCCAAAAACA
Found at i:699069 original size:15 final size:15
Alignment explanation
Indices: 699049--699106 Score: 64
Period size: 15 Copynumber: 3.7 Consensus size: 15
699039 AAAATGAAAC
699049 ATTTTAATATAAAAT
1 ATTTTAATATAAAAT
*
699064 ATTTT-ATTTCAAAAT
1 ATTTTAATAT-AAAAT
*
699079 ATAATTTAAAATAAAAT
1 AT--TTTAATATAAAAT
699096 ATTTTAATATA
1 ATTTTAATATA
699107 TTTATAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
14 3 0.09
15 20 0.57
17 10 0.29
18 2 0.06
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTTTAATATAAAAT
Found at i:699186 original size:24 final size:24
Alignment explanation
Indices: 699135--699186 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
699125 ATTAGGAATG
* **
699135 TTATTAAATTATATATTATTATTT
1 TTATTAAATTATATATTATAATAA
699159 TTATTAAATTATAT-TTAATAATAA
1 TTATTAAATTATATATT-ATAATAA
699183 TTAT
1 TTAT
699187 ATTAAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TTATTAAATTATATATTATAATAA
Found at i:699220 original size:61 final size:62
Alignment explanation
Indices: 699116--699240 Score: 189
Period size: 61 Copynumber: 2.0 Consensus size: 62
699106 ATTTATAAAA
* * * * *
699116 AATAATTATATTAGGAATGTTATTAAATTATATATTATTATTTTTATTAAATTATATTTAAT
1 AATAATTATATTAGAAATATGATTAAATTATATATTATCATTTTTATTAAATTATATATAAT
*
699178 AATAATTATATTA-AAATATGATTAAATTATTTATTATCATTTTTATTAAATTATATATAAT
1 AATAATTATATTAGAAATATGATTAAATTATATATTATCATTTTTATTAAATTATATATAAT
699239 AA
1 AA
699241 CAATAATAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
61 44 0.77
62 13 0.23
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (62 bp):
AATAATTATATTAGAAATATGATTAAATTATATATTATCATTTTTATTAAATTATATATAAT
Found at i:699420 original size:16 final size:16
Alignment explanation
Indices: 699399--699444 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
699389 CGAATTATTG
699399 ATTACAACTTTATTAC
1 ATTACAACTTTATTAC
* *
699415 ATTACAACTATATTCC
1 ATTACAACTTTATTAC
*
699431 ATTACAACATTATT
1 ATTACAACTTTATT
699445 CAATTCTAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.41
Consensus pattern (16 bp):
ATTACAACTTTATTAC
Found at i:699885 original size:12 final size:12
Alignment explanation
Indices: 699868--699904 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
699858 ACCGAATTAA
699868 ATCGATTAATCG
1 ATCGATTAATCG
699880 ATCGATTAATCG
1 ATCGATTAATCG
699892 ATCGATTAATCG
1 ATCGATTAATCG
699904 A
1 A
699905 ATTAAACCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (12 bp):
ATCGATTAATCG
Found at i:701237 original size:19 final size:20
Alignment explanation
Indices: 701200--701243 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
701190 AAATATTTTT
*
701200 AAAA-TATTAATTATTATAA
1 AAAATTATTAATTATGATAA
*
701219 CAAATTATTAA-TATGATAA
1 AAAATTATTAATTATGATAA
701238 AAAATT
1 AAAATT
701244 CTAAACGAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (20 bp):
AAAATTATTAATTATGATAA
Found at i:704674 original size:71 final size:71
Alignment explanation
Indices: 704558--704699 Score: 275
Period size: 71 Copynumber: 2.0 Consensus size: 71
704548 ATCATGAACC
*
704558 GCGTTTTGGATGGCTCCTGTTTTATTGTATATTATTTTTAACAACTGTCTACAACCAAGCTGAAG
1 GCGTTTTGGATGGCTCCTGTTTTATTATATATTATTTTTAACAACTGTCTACAACCAAGCTGAAG
704623 GGAGCT
66 GGAGCT
704629 GCGTTTTGGATGGCTCCTGTTTTATTATATATTATTTTTAACAACTGTCTACAACCAAGCTGAAG
1 GCGTTTTGGATGGCTCCTGTTTTATTATATATTATTTTTAACAACTGTCTACAACCAAGCTGAAG
704694 GGAGCT
66 GGAGCT
704700 TACTTAGCTT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (71 bp):
GCGTTTTGGATGGCTCCTGTTTTATTATATATTATTTTTAACAACTGTCTACAACCAAGCTGAAG
GGAGCT
Found at i:714602 original size:4 final size:4
Alignment explanation
Indices: 714593--714618 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
714583 AACAATTTGA
714593 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
714619 TCTAATAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:721719 original size:12 final size:12
Alignment explanation
Indices: 721675--721789 Score: 71
Period size: 12 Copynumber: 10.1 Consensus size: 12
721665 ATAAAATTCA
*
721675 AACAACAAAAAT
1 AACAACAAAAAC
* *
721687 ATCAACCAAAAC
1 AACAACAAAAAC
* * *
721699 AGCAGCAAAAAT
1 AACAACAAAAAC
721711 AACAAC---AA-
1 AACAACAAAAAC
*
721719 AACAACATAAAC
1 AACAACAAAAAC
*
721731 AACAACAAAAAT
1 AACAACAAAAAC
*
721743 AACAGCAAAAAC
1 AACAACAAAAAC
**
721755 AAC-ATGAAAAC
1 AACAACAAAAAC
*
721766 AAC-ACGAAAAC
1 AACAACAAAAAC
*
721777 AACAACCAAAAC
1 AACAACAAAAAC
721789 A
1 A
721790 GTAGAAAAAG
Statistics
Matches: 80, Mismatches: 18, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
8 6 0.08
9 2 0.03
11 20 0.25
12 52 0.65
ACGTcount: A:0.67, C:0.23, G:0.04, T:0.05
Consensus pattern (12 bp):
AACAACAAAAAC
Found at i:721722 original size:44 final size:44
Alignment explanation
Indices: 721674--721798 Score: 135
Period size: 44 Copynumber: 2.8 Consensus size: 44
721664 AATAAAATTC
* * *
721674 AAACAACAAAAATATCAACCAAAACAGCAGCAAAAATAACAACA
1 AAACAACAAAAACAACAACCAAAACAGCAGCAAAAACAACAACA
* * * * **
721718 AAACAACATAAACAACAACAAAAATAACAGCAAAAACAACATGA
1 AAACAACAAAAACAACAACCAAAACAGCAGCAAAAACAACAACA
*
721762 AAACAACACGAAAACAACAACCAAAACAGTAG-AAAAA
1 AAACAACA--AAAACAACAACCAAAACAGCAGCAAAAA
721799 GTACCAAAAT
Statistics
Matches: 65, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
44 43 0.66
45 5 0.08
46 17 0.26
ACGTcount: A:0.67, C:0.22, G:0.06, T:0.06
Consensus pattern (44 bp):
AAACAACAAAAACAACAACCAAAACAGCAGCAAAAACAACAACA
Found at i:721764 original size:11 final size:11
Alignment explanation
Indices: 721727--721780 Score: 54
Period size: 11 Copynumber: 4.7 Consensus size: 11
721717 AAAACAACAT
*
721727 AAACAACAACAA
1 AAACAAC-ACGA
* *
721739 AAATAACAGCAA
1 AAACAACA-CGA
*
721751 AAACAACATGA
1 AAACAACACGA
721762 AAACAACACGA
1 AAACAACACGA
721773 AAACAACA
1 AAACAACA
721781 ACCAAAACAG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
11 20 0.56
12 16 0.44
ACGTcount: A:0.69, C:0.22, G:0.06, T:0.04
Consensus pattern (11 bp):
AAACAACACGA
Found at i:725450 original size:24 final size:24
Alignment explanation
Indices: 725421--725473 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
725411 GAAGATGTCA
*
725421 TAACAGTACTAGGAGCAGGAGATG
1 TAACAGTACTAGGAGCAGAAGATG
* *
725445 TAACAGTAGTAGGAGTAGAAGATG
1 TAACAGTACTAGGAGCAGAAGATG
725469 TAACA
1 TAACA
725474 ACTAGTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.42, C:0.09, G:0.30, T:0.19
Consensus pattern (24 bp):
TAACAGTACTAGGAGCAGAAGATG
Found at i:730750 original size:6 final size:6
Alignment explanation
Indices: 730739--730777 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
730729 TGATCACAAT
* * *
730739 TGAAAG TGAAAG TGAAAG TGAAAT TGGAAT TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
730778 TATGAATTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (6 bp):
TGAAAG
Found at i:736684 original size:6 final size:6
Alignment explanation
Indices: 736673--736711 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
736663 TGATCAAAAT
* * *
736673 TGAAAG TGAAAG TGAAAG TGAAAT TGGAAT TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
736712 TATGAATTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (6 bp):
TGAAAG
Found at i:740483 original size:19 final size:19
Alignment explanation
Indices: 740432--740484 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
740422 TAGTATATTT
*
740432 CTCTTACGAGCCAGTATCG
1 CTCTTACGAGCTAGTATCG
* *
740451 CCCTTACGAACTAGTATCG
1 CTCTTACGAGCTAGTATCG
*
740470 CTCTTATGAGCTAGT
1 CTCTTACGAGCTAGT
740485 TCAATATATC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (19 bp):
CTCTTACGAGCTAGTATCG
Found at i:743819 original size:20 final size:22
Alignment explanation
Indices: 743796--743836 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
743786 ATAAAAGATT
743796 AATT-AAATT-CTAAAAAAAAA
1 AATTAAAATTACTAAAAAAAAA
743816 AATTCAAAATTACTAAAAAAA
1 AATT-AAAATTACTAAAAAAA
743837 TAGACAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
22 5 0.28
23 9 0.50
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AATTAAAATTACTAAAAAAAAA
Found at i:744106 original size:20 final size:19
Alignment explanation
Indices: 744063--744105 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
744053 TTATATTTTT
*
744063 AAAAATATTAATTATTATA
1 AAAAATATTAATTATGATA
744082 AAAAATTATTAA-TATGATA
1 AAAAA-TATTAATTATGATA
744101 AAAAA
1 AAAAA
744106 AACTTTAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAAATATTAATTATGATA
Found at i:745212 original size:34 final size:33
Alignment explanation
Indices: 745149--745212 Score: 76
Period size: 33 Copynumber: 1.9 Consensus size: 33
745139 GTTCATGCTT
* *
745149 AATATAACTTTGATATATTTAAACTTATATAAA
1 AATATAACTTTGATATAGTTAAACATATATAAA
*
745182 AATAGTAACTTT-TTATAGTTAAATCATATAT
1 AATA-TAACTTTGATATAGTTAAA-CATATAT
745213 GAATGTTTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
33 13 0.50
34 13 0.50
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.44
Consensus pattern (33 bp):
AATATAACTTTGATATAGTTAAACATATATAAA
Found at i:745539 original size:2 final size:2
Alignment explanation
Indices: 745534--745558 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
745524 TAGTTAGTGC
745534 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
745559 CACACTAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:746076 original size:12 final size:12
Alignment explanation
Indices: 746061--746085 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
746051 AAAAATGAAG
746061 TTGAAAATGTTA
1 TTGAAAATGTTA
746073 TTGAAAATGTTA
1 TTGAAAATGTTA
746085 T
1 T
746086 AAATAATAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (12 bp):
TTGAAAATGTTA
Found at i:748378 original size:16 final size:16
Alignment explanation
Indices: 748357--748393 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
748347 AATACATGGT
748357 ATAAATAA-AAAAACTA
1 ATAAATAATAAAAAC-A
748373 ATAAATAATAAAAACA
1 ATAAATAATAAAAACA
748389 ATAAA
1 ATAAA
748394 GCATAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (16 bp):
ATAAATAATAAAAACA
Found at i:748918 original size:20 final size:19
Alignment explanation
Indices: 748875--748918 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
748865 AGTCAAACAT
748875 TAAATAAAAAATTACTAAA
1 TAAATAAAAAATTACTAAA
*
748894 AAAATAATAAAATTTA-TAAA
1 TAAATAA-AAAA-TTACTAAA
748914 TAAAT
1 TAAAT
748919 GAATTAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 6 0.29
20 12 0.57
21 3 0.14
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (19 bp):
TAAATAAAAAATTACTAAA
Found at i:751847 original size:12 final size:12
Alignment explanation
Indices: 751832--751895 Score: 56
Period size: 12 Copynumber: 5.2 Consensus size: 12
751822 AAAAATATAT
*
751832 AATAAAAAAGAA
1 AATAAAAAACAA
751844 AATAAAAAACAAA
1 AATAAAAAAC-AA
*
751857 AATACGAAAACAA
1 AATA-AAAAACAA
* *
751870 ATTTAAAAACAA
1 AATAAAAAACAA
* *
751882 AAAAAAAAAGAA
1 AATAAAAAACAA
751894 AA
1 AA
751896 ATAAGAGAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
12 26 0.63
13 10 0.24
14 5 0.12
ACGTcount: A:0.80, C:0.06, G:0.05, T:0.09
Consensus pattern (12 bp):
AATAAAAAACAA
Found at i:754134 original size:32 final size:32
Alignment explanation
Indices: 754069--754134 Score: 78
Period size: 32 Copynumber: 2.1 Consensus size: 32
754059 AAATTGATAT
* * **
754069 ATGATCCGTTGTATTTTCTATGAGATATTATG
1 ATGATCCGTTGCATTTTCTATGAAATACCATG
* *
754101 ATGATCCTTTGCATTTTCTGTGAAATACCATG
1 ATGATCCGTTGCATTTTCTATGAAATACCATG
754133 AT
1 AT
754135 AATATTATTG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.44
Consensus pattern (32 bp):
ATGATCCGTTGCATTTTCTATGAAATACCATG
Found at i:765762 original size:21 final size:21
Alignment explanation
Indices: 765724--765763 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
765714 TGAGTTTCTG
* *
765724 TATACTTGTTTCGATAGAACT
1 TATACATGTATCGATAGAACT
*
765745 TATACATGTATCGGTAGAA
1 TATACATGTATCGATAGAA
765764 GTTCAAGGTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (21 bp):
TATACATGTATCGATAGAACT
Found at i:768887 original size:146 final size:147
Alignment explanation
Indices: 768579--769050 Score: 415
Period size: 146 Copynumber: 3.2 Consensus size: 147
768569 ACCAAGGAAA
* * * *
768579 CATGAAGATGT-AATGGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTACCACGAAGA--TGAAG
1 CATGAAGATGTGAA-GGGAAAGGTTGAGGCCGCAACAGCGAACCCGCTACCATGAAGATGTGAAG
* *** * * * * *
768641 GGAAAGGTT-AAGGCTGCAACGGTGAACCCGATACCTTGAAAGATGTGATAGGAAAGGTTGAGCC
65 GGAAAGGTTGAA-GCCGCAACGACAAACCCAATACCATG-AAGATTTGAAAGGAAAGGTTGAGGC
** * ** *
768705 CGTAACGGTGAAC-CTAGTAC
128 CACAACAGCAAACTC-GGTAC
* * * * * *
768725 CATGAAGA--TGAAGGGAAAGGTTGAAGCCGTAA-GGCGAACCCGGTACCTTGGAAGATGTGATG
1 CATGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACAGCGAACCCGCTACCAT-GAAGATGTGAAG
* * * * * *
768787 GGAAAGGTTGAAGTCGCAACGGCAAACCTAATACCATGAAGA-TT-AAGGGAAAGGTTGAGGTCG
65 GGAAAGGTTGAAGCCGCAACGACAAACCCAATACCATGAAGATTTGAAAGGAAAGGTTGAGGCCA
* *
768850 CAACAGCTAACTCGGTTC
130 CAACAGCAAACTCGGTAC
* * * * * *
768868 CTTAGAAGATGTGATGGGAAAGGTTGAGGCAGCAACAGCGAAGCTGCTACCATGAAGATTTGAAG
1 CAT-GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACAGCGAACCCGCTACCATGAAGATGTGAAG
* * *
768933 GGAAAGGTTGAGGCCGCAACGACGAACCCGATACCATGAAGATTTGAAAGGAAAGGTTGAGGCCA
65 GGAAAGGTTGAAGCCGCAACGACAAACCCAATACCATGAAGATTTGAAAGGAAAGGTTGAGGCCA
* *
768998 CAATAGCAAACTTGGTAC
130 CAACAGCAAACTCGGTAC
*
769016 CATGAAGATTTGAAGGGAAAGGTTGAGGCCGCAAC
1 CATGAAGATGTGAAGGGAAAGGTTGAGGCCGCAAC
769051 GATGAACCTA
Statistics
Matches: 261, Mismatches: 53, Indels: 23
0.77 0.16 0.07
Matches are distributed among these distances:
143 41 0.16
144 31 0.12
145 6 0.02
146 106 0.41
147 45 0.17
148 32 0.12
ACGTcount: A:0.34, C:0.17, G:0.32, T:0.18
Consensus pattern (147 bp):
CATGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACAGCGAACCCGCTACCATGAAGATGTGAAGG
GAAAGGTTGAAGCCGCAACGACAAACCCAATACCATGAAGATTTGAAAGGAAAGGTTGAGGCCAC
AACAGCAAACTCGGTAC
Found at i:768919 original size:97 final size:95
Alignment explanation
Indices: 768581--769051 Score: 460
Period size: 97 Copynumber: 4.9 Consensus size: 95
768571 CAAGGAAACA
* * * * * *
768581 TGAAGATGTAATGGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTACCACGAAGATGAAGGGAAA
1 TGAAGATGTGATGGGAAAGGTTGAGGCAGCAACGGCGAACCTGGTACCATGAAGATTAAGGGAAA
* * *
768646 GGTTAAGGCTGCAACGGTGAACCCGATACCT
66 GGTTGAGGCCGCAAC-GCGAACCCGATACCT
* * * * * * *
768677 TGAAAGATGTGATAGGAAAGGTTGAGCCCGTAACGGTGAACCTAGTACCATGAAGATGAAGGGAA
1 TG-AAGATGTGATGGGAAAGGTTGAGGCAGCAACGGCGAACCTGGTACCATGAAGATTAAGGGAA
* * * *
768742 AGGTTGAAGCCGTAAGGCGAACCCGGTACCT
65 AGGTTGAGGCCGCAACGCGAACCCGATACCT
* * **
768773 TGGAAGATGTGATGGGAAAGGTTGAAGTC-GCAACGGCAAACCTAATACCATGAAGATTAAGGGA
1 T-GAAGATGTGATGGGAAAGGTTG-AGGCAGCAACGGCGAACCTGGTACCATGAAGATTAAGGGA
* * * * *
768837 AAGGTTGAGGTCGCAACAGCTAACTCGGTTCCT
64 AAGGTTGAGGCCGCAAC-GCGAACCCGATACCT
* * *
768870 TAGAAGATGTGATGGGAAAGGTTGAGGCAGCAACAGCGAAGCTGCTACCATGAAGATTTGAAGGG
1 T-GAAGATGTGATGGGAAAGGTTGAGGCAGCAACGGCGAACCTGGTACCATGAAGA-TT-AAGGG
*
768935 AAAGGTTGAGGCCGCAACGACGAACCCGATACCA
63 AAAGGTTGAGGCCGCAACG-CGAACCCGATACCT
* ** ** * *
768969 TGAAGATTTGAAAGGAAAGGTTGAGGCCA-CAATAGCAAACTTGGTACCATGAAGATTTGAAGGG
1 TGAAGATGTGATGGGAAAGGTTGAGG-CAGCAACGGCGAACCTGGTACCATGAAGA-TT-AAGGG
769033 AAAGGTTGAGGCCGCAACG
63 AAAGGTTGAGGCCGCAACG
769052 ATGAACCTAA
Statistics
Matches: 317, Mismatches: 49, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
96 82 0.26
97 127 0.40
98 74 0.23
99 34 0.11
ACGTcount: A:0.34, C:0.17, G:0.32, T:0.18
Consensus pattern (95 bp):
TGAAGATGTGATGGGAAAGGTTGAGGCAGCAACGGCGAACCTGGTACCATGAAGATTAAGGGAAA
GGTTGAGGCCGCAACGCGAACCCGATACCT
Found at i:768921 original size:193 final size:193
Alignment explanation
Indices: 768579--769058 Score: 520
Period size: 193 Copynumber: 2.5 Consensus size: 193
768569 ACCAAGGAAA
* ** * * *
768579 CATGAAGATGTAATGGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTACCACGAAGATGAAGGGA
1 CATGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCAAACCTGGTACCATGAAGATTAAGGGA
* * * *
768644 AAGGTTAAGGCTGCAACGGTGAACCCGATACCTTGAAAGATGTGATAGGAAAGGTTGAGCCCGTA
66 AAGGTTGAGGC-GCAACGCTGAACCCGATACCTTGAAAGATGTGATAGGAAAGGTTGAGCCAGCA
* * * * *
768709 ACGGTGAACCTAGTACCATGAAGA-TGAAGGGAAAGGTTGAAGCCGTAA-GGCGAACCCGGTAC
130 ACAGCGAACCTAGTACCATGAAGATTGAAGGGAAAGGTTGAAGCCGCAACGACGAACCCGATAC
* * * **
768771 CTTGGAAGATGTGATGGGAAAGGTTGAAGTCGCAACGGCAAACCTAATACCATGAAGATTAAGGG
1 CAT-GAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCAAACCTGGTACCATGAAGATTAAGGG
* * * * *
768836 AAAGGTTGAGGTCGCAACAGCT-AACTCGGTTCCTT-AGAAGATGTGATGGGAAAGGTTGAGGCA
65 AAAGGTTGAGG-CGCAAC-GCTGAACCCGATACCTTGA-AAGATGTGATAGGAAAGGTTGAGCCA
* *
768899 GCAACAGCGAAGCT-GCTACCATGAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCG
127 GCAACAGCGAACCTAG-TACCATGAAGA-TTGAAGGGAAAGGTTGAAGCCGCAACGACGAACCCG
768963 ATAC
190 ATAC
* ** * ** *
768967 CATGAAGATTTGAAAGGAAAGGTTGAGGCCACAATAGCAAACTTGGTACCATGAAGATTTGAAGG
1 CATGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCAAACCTGGTACCATGAAGA-TT-AAGG
*
769032 GAAAGGTTGAGGCCGCAACGATGAACC
64 GAAAGGTTGAGG-CGCAACGCTGAACC
769059 TAACAACTTT
Statistics
Matches: 235, Mismatches: 42, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
192 4 0.02
193 120 0.51
194 3 0.01
195 65 0.28
196 18 0.08
197 25 0.11
ACGTcount: A:0.34, C:0.17, G:0.31, T:0.17
Consensus pattern (193 bp):
CATGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCAAACCTGGTACCATGAAGATTAAGGGA
AAGGTTGAGGCGCAACGCTGAACCCGATACCTTGAAAGATGTGATAGGAAAGGTTGAGCCAGCAA
CAGCGAACCTAGTACCATGAAGATTGAAGGGAAAGGTTGAAGCCGCAACGACGAACCCGATAC
Found at i:768993 original size:49 final size:49
Alignment explanation
Indices: 768579--769058 Score: 347
Period size: 49 Copynumber: 9.9 Consensus size: 49
768569 ACCAAGGAAA
* ** *
768579 CATGAAGATGT-AATGGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTAC
1 CATGAAGATTTGAA-GGGAAAGGTTGAGGCCGCAACGACGAACCCGATAC
* * * **
768628 CACGAAGA--TGAAGGGAAAGGTTAAGGCTGCAACGGTGAACCCGATAC
1 CATGAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCGATAC
* * * * ** *
768675 CTTGAAAGATGTGATA-GGAAAGGTTGAGCCCGTAACGGTGAA-CCTAGTAC
1 CATG-AAGATTTGA-AGGGAAAGGTTGAGGCCGCAACGACGAACCCGA-TAC
* * * *
768725 CATGAAGA--TGAAGGGAAAGGTTGAAGCCGTAA-GGCGAACCCGGTAC
1 CATGAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCGATAC
* * * * * * * **
768771 CTTGGAAGATGTGATGGGAAAGGTTGAAGTCGCAACGGCAAACCTAATAC
1 CAT-GAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCGATAC
* * * * *
768821 CATGAAGA-TT-AAGGGAAAGGTTGAGGTCGCAAC-AGCTAACTCGGTTC
1 CATGAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGA-CGAACCCGATAC
* * * * * * *
768868 CTTAGAAGATGTGATGGGAAAGGTTGAGGCAGCAAC-AGCGAAGCTGCTAC
1 CAT-GAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGA-CGAACCCGATAC
768918 CATGAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCGATAC
1 CATGAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCGATAC
* * * * ** *
768967 CATGAAGATTTGAAAGGAAAGGTTGAGGCCACAA-TAGCAAACTTGGTAC
1 CATGAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGA-CGAACCCGATAC
*
769016 CATGAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGATGAACC
1 CATGAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGACGAACC
769059 TAACAACTTT
Statistics
Matches: 345, Mismatches: 67, Indels: 38
0.77 0.15 0.08
Matches are distributed among these distances:
46 11 0.03
47 91 0.26
48 13 0.04
49 154 0.45
50 75 0.22
51 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.31, T:0.17
Consensus pattern (49 bp):
CATGAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCGATAC
Found at i:769405 original size:39 final size:39
Alignment explanation
Indices: 769340--770044 Score: 327
Period size: 39 Copynumber: 17.7 Consensus size: 39
769330 AAGTTACGTT
* *
769340 ACCATCCAATCTCTTACCCCGATCATGGGATAGATTGAA
1 ACCACCCAATCTCTTACCCCGATCATGGGACAGATTGAA
* * * *
769379 ACCACCCACTTTCTTACCTCGATCATGGGGCAGATTGAA
1 ACCACCCAATCTCTTACCCCGATCATGGGACAGATTGAA
* * * *
769418 ATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGCA
1 ACCACCCAATCTCTTACCCCGATCATGGGACAGATTGAA
* * ** * *
769457 GCCATCATCTAATCTCTTACCCTAATCATGGGGCAGATTGCA
1 ACCA-C--CCAATCTCTTACCCCGATCATGGGACAGATTGAA
* * * * * * *
769499 GCCATCCAATCTTTTACCCCAATCATGGGGCAAATTGCA
1 ACCACCCAATCTCTTACCCCGATCATGGGACAGATTGAA
* * * *
769538 GCCATCATCCAATCACTTACCCTGATCATGGGACAGATTAAA
1 ACCA-C--CCAATCTCTTACCCCGATCATGGGACAGATTGAA
* * * *
769580 ACCACCCAATCTTTTACCCTGATCATGGGGCAAATTGAA
1 ACCACCCAATCTCTTACCCCGATCATGGGACAGATTGAA
* * * *
769619 AACAACCAATCTCTTACCTCGATCATAGGG-CAAATTG-A
1 ACCACCCAATCTCTTACCCCGATCAT-GGGACAGATTGAA
* * * *** * *
769657 AGCATCCAATCTTTTACCTTAATCA-GAAGG-TAGAATGAA
1 ACCACCCAATCTCTTACCCCGATCATG--GGACAGATTGAA
** * *
769696 GGCACACCAATCTCTTACCTCGATCATGAGG-CAGATTAAA
1 ACCAC-CCAATCTCTTACCCCGATCATG-GGACAGATTGAA
** *
769736 ACCACCCAATCTCTTACCCCGATCATGGGGTAGATTAAA
1 ACCACCCAATCTCTTACCCCGATCATGGGACAGATTGAA
* ** * * * * *
769775 AACATTCAAACTTTTACCCCAATCATGAGG-CA-AGTCATA
1 ACCACCCAATCTCTTACCCCGATCATG-GGACAGATTGA-A
* * *
769814 GCCATAATCCAATCTCTTACCCCGATCATGAGG-CAGATTGCA
1 ACC---ACCCAATCTCTTACCCCGATCATG-GGACAGATTGAA
* * * * * * *
769856 GCCATCCAATCTATTACCTCC-ATCATAGGTCAAATTGCA
1 ACCACCCAATCTCTTACC-CCGATCATGGGACAGATTGAA
* *
769895 ACCATCATCCAATCACTTACCCCGATCATGGGATAGATTGAA
1 ACCA-C--CCAATCTCTTACCCCGATCATGGGACAGATTGAA
* * *** * * *
769937 ACCA-CTAATCTTTTACCTTAATTA-GAAGCCAGATTGAA
1 ACCACCCAATCTCTTACCCCGATCATG-GGACAGATTGAA
*** * *
769975 GGTACATCAATCTCTTACCCTGATCATGGGGA-AGATTGAA
1 ACCAC-CCAATCTCTTACCCCGATCAT-GGGACAGATTGAA
*
770015 GACATCATCCAATCTCTTACCCCGATCATG
1 -AC--CACCCAATCTCTTACCCCGATCATG
770045 AGGCAAATTA
Statistics
Matches: 513, Mismatches: 120, Indels: 64
0.74 0.17 0.09
Matches are distributed among these distances:
36 1 0.00
37 1 0.00
38 57 0.11
39 246 0.48
40 58 0.11
41 6 0.01
42 141 0.27
43 3 0.01
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (39 bp):
ACCACCCAATCTCTTACCCCGATCATGGGACAGATTGAA
Found at i:769510 original size:81 final size:81
Alignment explanation
Indices: 769341--770076 Score: 455
Period size: 81 Copynumber: 9.2 Consensus size: 81
769331 AGTTACGTTA
** * * *
769341 CCATCCAATCTCTTACCCCGATCATGGGATAGATTGAAACCA-C-CCACTTTCTTA-CCTCGATC
1 CCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCCATCACCAATCTCTTACCCTCGATC
*
769403 ATGGGGCAGATTGAAA
66 ATGGGGCAGATTGAAG
* * * *
769419 TCATCCAATCTCTTACCCCGATCATGGGGCAGATTGCAGCCATCATCTAATCTCTTACCCT-AAT
1 CCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCCATCA-CCAATCTCTTACCCTCGAT
*
769483 CATGGGGCAGATTGCAG
65 CATGGGGCAGATTGAAG
* * * * *
769500 CCATCCAATCTTTTACCCCAATCATGGGGCAAATTGCAGCCATCATCCAATCACTTACCCT-GAT
1 CCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCCATCA-CCAATCTCTTACCCTCGAT
* * *
769564 CATGGGACAGATTAAAA
65 CATGGGGCAGATTGAAG
* * * * **
769581 CCACCCAATCTTTTACCCTGATCATGGGGCAAATTGAAAACA--ACCAATCTCTTA-CCTCGATC
1 CCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCCATCACCAATCTCTTACCCTCGATC
* *
769643 ATAGGGCAAATTGAAG
66 ATGGGGCAGATTGAAG
* *** * * * *
769659 -CATCCAATCTTTTACCTTAATCA-GAAGGTAGAATGAAGGCA-CACCAATCTCTTA-CCTCGAT
1 CCATCCAATCTCTTACCCCGATCATG-GGGCAGATTGAAGCCATCACCAATCTCTTACCCTCGAT
* * *
769720 CATGAGGCAGATTAAAA
65 CATGGGGCAGATTGAAG
* * * ** * *
769737 CCACCCAATCTCTTACCCCGATCATGGGGTAGATTAAAAACATTCA--AA-CTTTTACCC-CAAT
1 CCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCCA-TCACCAATCTCTTACCCTCGAT
* * *
769798 CATGAGGCA-AGTCATAG
65 CATGGGGCAGATTGA-AG
* * * *
769815 CCATAATCCAATCTCTTACCCCGATCATGAGGCAGATTGCAGCCAT--CCAATCTATTA-CCTCC
1 CC---ATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCCATCACCAATCTCTTACCCTCG
* * * *
769877 ATCATAGGTCAAATTGCAAC
63 ATCATGGGGCAGATTG-AAG
* ** * * * **
769897 CATCATCCAATCACTTACCCCGATCATGGGATAGATTGAA---ACCACTAATCTTTTA-CCTTAA
1 C--CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCCATCACCAATCTCTTACCCTCGA
* * *
769958 TTA-GAAGCCAGATTGAAGG
64 TCATG-GGGCAGATTGAA-G
* * * *
769977 TACAT-CAATCTCTTACCCTGATCATGGGGAAGATTGAAGACATCATCCAATCTCTTACCC-CGA
1 -CCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCCATCA-CCAATCTCTTACCCTCGA
* * *
770040 TCATGAGGCAAATTAAAG
64 TCATGGGGCAGATTGAAG
* * *
770058 TCATCCAATTTTTTACCCC
1 CCATCCAATCTCTTACCCC
770077 TAAAATCAAA
Statistics
Matches: 510, Mismatches: 112, Indels: 69
0.74 0.16 0.10
Matches are distributed among these distances:
76 1 0.00
77 36 0.07
78 143 0.28
79 40 0.08
80 31 0.06
81 226 0.44
82 28 0.05
83 4 0.01
84 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (81 bp):
CCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCCATCACCAATCTCTTACCCTCGATC
ATGGGGCAGATTGAAG
Found at i:769591 original size:120 final size:116
Alignment explanation
Indices: 769340--770049 Score: 452
Period size: 120 Copynumber: 5.9 Consensus size: 116
769330 AAGTTACGTT
* * * * * * *
769340 ACCATCCAATCTCTTACCCCGATCATG-GGATAGATTGAAACCACCCACTTTCTTACCTCGATCA
1 ACCACCCAATCTCTTACCCTGATCATGAGG-CAGATTGAAACCATCCAATCTCTTACCCCGATCA
* * *
769404 TGGGGCAGATTGAAATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGCA
65 TGGGGCAAATTGACATCATCCAATCTCTTACCCCGATCAT-GGGCAGATTGAA
* * * * * * * *
769457 GCCATCATCTAATCTCTTACCCTAATCATGGGGCAGATTGCAGCCATCCAATCTTTTACCCCAAT
1 ACCA-C--CCAATCTCTTACCCTGATCATGAGGCAGATTGAAACCATCCAATCTCTTACCCCGAT
* * *
769522 CATGGGGCAAATTGCAGCCATCATCCAATCACTTACCCTGATCATGGGACAGATTAAA
63 CATGGGGCAAATTG-A--CATCATCCAATCTCTTACCCCGATCATGGG-CAGATTGAA
* * * * * *
769580 ACCACCCAATCTTTTACCCTGATCATGGGGCAAATTGAAAACAACCAATCTCTTACCTCGATCAT
1 ACCACCCAATCTCTTACCCTGATCATGAGGCAGATTGAAACCATCCAATCTCTTACCCCGATCAT
* * * *** * *
769645 AGGGCAAATTGA-AGCATCCAATCTTTTACCTTAATCA-GAAGGTAGAATGAA
66 GGGGCAAATTGACATCATCCAATCTCTTACCCCGATCATG--GGCAGATTGAA
** * *
769696 GGCACACCAATCTCTTA-CCTCGATCATGAGGCAGATTAAAACCACCCAATCTCTTACCCCGATC
1 ACCAC-CCAATCTCTTACCCT-GATCATGAGGCAGATTGAAACCATCCAATCTCTTACCCCGATC
* * * * * * * * * * *
769760 ATGGGGTAGATTAAAAACATTCAAACTTTTACCCCAATCATGAGGCA-AGTCATA
64 ATGGGGCAAATTGACATCATCCAATCTCTTACCCCGATCATG-GGCAGATTGA-A
* * * * * *
769814 GCCATAATCCAATCTCTTACCCCGATCATGAGGCAGATTGCAGCCATCCAATCTATTACCTCC-A
1 ACC---ACCCAATCTCTTACCCTGATCATGAGGCAGATTGAAACCATCCAATCTCTTACC-CCGA
* * * *
769878 TCATAGGTCAAATTGCAACCATCATCCAATCACTTACCCCGATCATGGGATAGATTGAA
62 TCATGGGGCAAATTG--A-CATCATCCAATCTCTTACCCCGATCATGGG-CAGATTGAA
* * * * * * *
769937 ACCA-CTAATCTTTTACCTTAATTA-GAAGCCAGATTGAAGGTA-CAT-CAATCTCTTACCCTGA
1 ACCACCCAATCTCTTACCCTGATCATG-AGGCAGATTGAA---ACCATCCAATCTCTTACCCCGA
769998 TCATGGGG-AAGATTGAAGACATCATCCAATCTCTTACCCCGATCATGAGGCA
62 TCATGGGGCAA-ATT---GACATCATCCAATCTCTTACCCCGATCATG-GGCA
770050 AATTAAAGTC
Statistics
Matches: 457, Mismatches: 101, Indels: 67
0.73 0.16 0.11
Matches are distributed among these distances:
115 1 0.00
116 32 0.07
117 65 0.14
118 28 0.06
119 29 0.06
120 218 0.48
121 14 0.03
122 7 0.02
123 60 0.13
124 3 0.01
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (116 bp):
ACCACCCAATCTCTTACCCTGATCATGAGGCAGATTGAAACCATCCAATCTCTTACCCCGATCAT
GGGGCAAATTGACATCATCCAATCTCTTACCCCGATCATGGGCAGATTGAA
Found at i:770015 original size:357 final size:358
Alignment explanation
Indices: 769345--770020 Score: 868
Period size: 357 Copynumber: 1.9 Consensus size: 358
769335 ACGTTACCAT
* * * * *
769345 CCAATCTCTTACCCCGATCATGGGATAGATTGAAACCACCCACTTTCTTACCTCGATCATGGGGC
1 CCAATCTCTTACCCCGATCATGGGACAGATTAAAACCACCCAATCTCTTACCCCGATCATGGGGC
* * * * * * * *
769410 AGATTGAAATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGCAGCCATCATCTAATCTCTT
66 AGATTAAAAACATCCAAACTCTTACCCCAATCATGAGGCAGAGTGCAGCCATAATCCAATCTCTT
* * * * *
769475 ACCCTAATCATGGGGCAGATTGCAGCCATCCAATCTTTTACCCCAATCATGGGGCAAATTGCAGC
131 ACCCCAATCATGAGGCAGATTGCAGCCATCCAATCTATTACCCCAATCATAGGGCAAATTGCAAC
* *
769540 CATCATCCAATCACTTACCCTGATCATGGGACAGATTAAAACCACCCAATCTTTTACCCTGATCA
196 CATCATCCAATCACTTACCCCGATCATGGGACAGATTAAAACCACCCAATCTTTTACCCTAATCA
* *
769605 TGGGGCAAATTGAAAACAACCAATCTCTTACCTCGATCATAGGGCAAATTGAAG-CATCCAATCT
261 TGAGCCAAATTGAAAACAACCAATCTCTTACCTCGATCATAGGGCAAATTGAAGACATCCAATCT
769669 TTTACCTTAATCAGAAGGTAGAATGAAGGCACA
326 TTTACCTTAATCAGAAGGTAGAATGAAGGCACA
*
769702 CCAATCTCTTACCTCGATCATGAGG-CAGATTAAAACCACCCAATCTCTTACCCCGATCATGGGG
1 CCAATCTCTTACCCCGATCATG-GGACAGATTAAAACCACCCAATCTCTTACCCCGATCATGGGG
* * *
769766 TAGATTAAAAACATTCAAACTTTTACCCCAATCATGAGGCA-AGT-CATAGCCATAATCCAATCT
65 CAGATTAAAAACATCCAAACTCTTACCCCAATCATGAGGCAGAGTGC--AGCCATAATCCAATCT
* *
769829 CTTACCCCGATCATGAGGCAGATTGCAGCCATCCAATCTATTACCTCC-ATCATAGGTCAAATTG
128 CTTACCCCAATCATGAGGCAGATTGCAGCCATCCAATCTATTACC-CCAATCATAGGGCAAATTG
* * * *
769893 CAACCATCATCCAATCACTTACCCCGATCATGGGATAGATTGAAACCA-CTAATCTTTTACCTTA
192 CAACCATCATCCAATCACTTACCCCGATCATGGGACAGATTAAAACCACCCAATCTTTTACCCTA
* * * * *
769957 ATTA-GAAGCCAGATTGAAGGTAC-ATCAATCTCTTACC-CTGATCAT-GGGGAAGATTGAAGAC
257 ATCATG-AGCCAAATTGAA--AACAACCAATCTCTTACCTC-GATCATAGGGCAA-ATTGAAGAC
770018 ATC
317 ATC
770021 ATCCAATCTC
Statistics
Matches: 272, Mismatches: 37, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
355 2 0.01
356 33 0.12
357 227 0.83
358 10 0.04
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (358 bp):
CCAATCTCTTACCCCGATCATGGGACAGATTAAAACCACCCAATCTCTTACCCCGATCATGGGGC
AGATTAAAAACATCCAAACTCTTACCCCAATCATGAGGCAGAGTGCAGCCATAATCCAATCTCTT
ACCCCAATCATGAGGCAGATTGCAGCCATCCAATCTATTACCCCAATCATAGGGCAAATTGCAAC
CATCATCCAATCACTTACCCCGATCATGGGACAGATTAAAACCACCCAATCTTTTACCCTAATCA
TGAGCCAAATTGAAAACAACCAATCTCTTACCTCGATCATAGGGCAAATTGAAGACATCCAATCT
TTTACCTTAATCAGAAGGTAGAATGAAGGCACA
Found at i:772001 original size:9 final size:9
Alignment explanation
Indices: 771989--772026 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
771979 CAGCAATTTA
771989 TTCTTCTTT
1 TTCTTCTTT
771998 TTCTT-TTCT
1 TTCTTCTT-T
772007 TTCTTCTTT
1 TTCTTCTTT
*
772016 TTCTTATTT
1 TTCTTCTTT
772025 TT
1 TT
772027 TTTAATTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (9 bp):
TTCTTCTTT
Found at i:786085 original size:21 final size:20
Alignment explanation
Indices: 786061--786107 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
786051 TGAAAAGTAT
786061 TTACAAAAAGAATCTCTAAGA
1 TTACAAAAA-AATCTCTAAGA
**
786082 TTACAATCAAATCTCTAAGA
1 TTACAAAAAAATCTCTAAGA
*
786102 TCACAA
1 TTACAA
786108 GGATCATATC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.49, C:0.19, G:0.06, T:0.26
Consensus pattern (20 bp):
TTACAAAAAAATCTCTAAGA
Found at i:786804 original size:21 final size:20
Alignment explanation
Indices: 786780--786826 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
786770 TGAAAAGTAT
786780 TTACAAAAAGAATCTCTAAGA
1 TTACAAAAA-AATCTCTAAGA
**
786801 TTACAATCAAATCTCTAAGA
1 TTACAAAAAAATCTCTAAGA
*
786821 TCACAA
1 TTACAA
786827 GGATCATATC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.49, C:0.19, G:0.06, T:0.26
Consensus pattern (20 bp):
TTACAAAAAAATCTCTAAGA
Found at i:786817 original size:719 final size:719
Alignment explanation
Indices: 784711--786861 Score: 3620
Period size: 718 Copynumber: 3.0 Consensus size: 719
784701 CCTCAAGAGC
*
784711 ATCATCTCTTACTGTCAACTTATCAGTAGTGGACCTAAGAGAATCCATCACAGACTCTTTGCTAT
1 ATCATCTCTTACTGTCAACTTATCAGTAGTGGACCTAAGAGAATCCATCACAAACTCTTTGCTAT
* * *
784776 CCTCCCTTAGATCATCAATACGACTCATGGCAATCTCAAGTGTCTCATTCATGTCTCACATGGAC
66 CCTCCCTTAGATCATCAATACGGCTCATGGCAATCTCAAGTGTCTCCTTCATGTCTCCCATGGAC
* * * *
784841 TCTTTGAGATTGACCACGTGATTCTCTAAGCTCGACAGCATGTCTCTTGATTGACTAGCCTTTCA
131 TCTTCGAGATTGACCACGCGATTCTCTAAGCTCGACAGCATGTCCCTTGATCGACTAGCCTTTCA
* * * *
784906 GGCCCTTTCGCGGGTCTTTATAGGCTCAACATGTTCAACGATTTCTTTCGACATCTTGCATAATG
196 GGCCCTTTCGCGGGTCTTCATAGGCTCAACATGTTCAACGGTTTCTTTTGACATCTTGCAAAATG
* * *
784971 CCTTCGCAACACTAACTCTGATACCAACTGTCACAGACTTAGATTTTTCCCACATAATCCGTGCA
261 CCTTCGCAACACTAGCTCTGATACCAACTGTCACGGACTTAGATTTTTCCCACACAATCCGTGCA
* *
785036 GCCTTAGGTCGCTTCTTTGCTTAAAAAACACCTAAGTCAACCTAATTCCCAACAAATGAGGATTC
326 GCCTTAGGTCGCTTCTTTGCTTCAAAAACACCTAAGTCAGCCTAATTCCCAACAAATGAGGATTC
*
785101 AACAGAATTTCCTCTAAGGCACCAACACAAAAGCGGAATAACTCAAGATGAATGAATGAAGAACG
391 AACAGAATTTCCTCTAAGGCACCAACACAAAAGCGGAAGAACTCAAGATGAATGAATGAAGAACG
785166 AAGAACAATGGCAAAGAAACTAAGAACACAAAAGAGAGAGTTTTGAGTGAATGCTCTCAAGAA-T
456 AAGAACAATGGCAAAGAAACTAAGAACACAAAAGAGAGAGTTTTGAGTGAATGCTCTCAAGAATT
* *
785230 CCTATTACTCAAGAATGAAGTGA-TT----T-AGGGGAAGAGGCCTCTATTTATAGTTGAGCCTC
521 CTTATTGCTCAAGAATGAAGTGATTTACAATGAGGGGAAGAGGCCTCTATTTATAGTTGAGCCTC
* *
785289 CCCAAAATCAACGATACATATCAAAGTACATCAATGGCTAAGATTGAAAAGTATTTACAAAAAGA
586 CCCAAAATCAACGGTACAGATCAAAGTACATCAATGGCTAAGATTGAAAAGTATTTACAAAAAGA
* *
785354 ATCTCTAAGATTACAATCAAATCTCTAATATCACAAGGATCATATCTTCTAAGATTGCCTATCTT
651 ATCTCTAAGATTACAATCAAATCTCTAAGATCACAAGGATCATATCTTCTAAGATTGTCTATCTT
785419 GAAG
716 GAAG
785423 ATCATCTCTTACTGTCAACTTATCAGTAGTGGACCTAAGAGAATCCATCACAAACTCTTTGCTAT
1 ATCATCTCTTACTGTCAACTTATCAGTAGTGGACCTAAGAGAATCCATCACAAACTCTTTGCTAT
*
785488 CCTCCCTTAGATCATCAATACGGCTCATGACAATCTCAAGTGTCTCCTTCATGTCTCCCATGGAC
66 CCTCCCTTAGATCATCAATACGGCTCATGGCAATCTCAAGTGTCTCCTTCATGTCTCCCATGGAC
* * * * * *
785553 TCTTCGACATTGACCACGCGATTCTCTAAGCTCGACAGCATGCCCCTTAACCGACTAGTCGTTCA
131 TCTTCGAGATTGACCACGCGATTCTCTAAGCTCGACAGCATGTCCCTTGATCGACTAGCCTTTCA
* *
785618 GGCCCTTTCGCGGGTCTTCATAGGCTCAACATGTTCAACAGTTTCTTTTGACATCTTACAAAATG
196 GGCCCTTTCGCGGGTCTTCATAGGCTCAACATGTTCAACGGTTTCTTTTGACATCTTGCAAAATG
**
785683 CCTTCGCAACACTAGCTAAGATACCAACTGTCACGGACTTAGA-TTTTCCCACACAATCCGTGCA
261 CCTTCGCAACACTAGCTCTGATACCAACTGTCACGGACTTAGATTTTTCCCACACAATCCGTGCA
* * *
785747 GCCTTAGGTTGCTTCTTTGCTTCAAAAACACCTAAGTCTGCCTAATTCCCAACAAATGAGGATTT
326 GCCTTAGGTCGCTTCTTTGCTTCAAAAACACCTAAGTCAGCCTAATTCCCAACAAATGAGGATTC
* *
785812 AACAGAATTTCCTCCAAGGCACCAACACAAAAGCGGAAGAACTCAAGATGAATGAATGAATAACG
391 AACAGAATTTCCTCTAAGGCACCAACACAAAAGCGGAAGAACTCAAGATGAATGAATGAAGAACG
785877 AAGAACAATGGCAAAGAAACTAAGAACACAAAAGAGAGAGTTTTGAGTGAATGCTCTCAAGAATT
456 AAGAACAATGGCAAAGAAACTAAGAACACAAAAGAGAGAGTTTTGAGTGAATGCTCTCAAGAATT
* *
785942 CTTATTGCTCAAGAATGAAGTTATTTACAATGAGGGGAAGAGGCCTCTATTTATAATTGAGCCTC
521 CTTATTGCTCAAGAATGAAGTGATTTACAATGAGGGGAAGAGGCCTCTATTTATAGTTGAGCCTC
786007 CCCAAAATCAACGGTACAGATCAAAGTACATCAATGGCTAAGATTGAAAAGTATTTACAAAAAGA
586 CCCAAAATCAACGGTACAGATCAAAGTACATCAATGGCTAAGATTGAAAAGTATTTACAAAAAGA
786072 ATCTCTAAGATTACAATCAAATCTCTAAGATCACAAGGATCATATCTTCTAAGATTGTCTATCTT
651 ATCTCTAAGATTACAATCAAATCTCTAAGATCACAAGGATCATATCTTCTAAGATTGTCTATCTT
786137 GAAG
716 GAAG
* * * *
786141 GTTATCTCTTACTATCAACTTATCAATAGTGGACCTAAGAGAATCCATCACAAACTCTTTGCTAT
1 ATCATCTCTTACTGTCAACTTATCAGTAGTGGACCTAAGAGAATCCATCACAAACTCTTTGCTAT
* * *
786206 CCTCTCTTAGATCATCAATATGGCTTATGGCAATCTCAAGTGTCTCCTTCATGTCTCCCATGGAC
66 CCTCCCTTAGATCATCAATACGGCTCATGGCAATCTCAAGTGTCTCCTTCATGTCTCCCATGGAC
*
786271 TCTTCGAGATTGACCACGCGATTCTCTAAGCTCGACAGCATGTCCCTTGATCGACTAGCCTTTCG
131 TCTTCGAGATTGACCACGCGATTCTCTAAGCTCGACAGCATGTCCCTTGATCGACTAGCCTTTCA
* * * **
786336 GGCCCTTTCGTGGGTCTCCATAGGCTCAACATGTTCAATGGTTTCTTTTGACATCTTGCAGGATG
196 GGCCCTTTCGCGGGTCTTCATAGGCTCAACATGTTCAACGGTTTCTTTTGACATCTTGCAAAATG
*
786401 CCTTCGCAACACTAGCTCTGATACCAACTGTCATGGACTTAGATTTTTCCCACACAATCCGTGCA
261 CCTTCGCAACACTAGCTCTGATACCAACTGTCACGGACTTAGATTTTTCCCACACAATCCGTGCA
* *
786466 GCGTTAGGTCGCTTCTTTGCTTCAAAAACACTTAAGTCAGCCTAATTCCCAACAAATGAGGATTC
326 GCCTTAGGTCGCTTCTTTGCTTCAAAAACACCTAAGTCAGCCTAATTCCCAACAAATGAGGATTC
* * * *
786531 AAAAGAATTTCCTCTAAGGCACCAACACAAAAACAGAAGAACTTAAGATGAATGAATGAAGAACG
391 AACAGAATTTCCTCTAAGGCACCAACACAAAAGCGGAAGAACTCAAGATGAATGAATGAAGAACG
*
786596 AAGAACAATGGCAAAGAAACTAAGAACACAAAAAAGAGAGTTTTGAGTGAATGCTCTCAAGAATT
456 AAGAACAATGGCAAAGAAACTAAGAACACAAAAGAGAGAGTTTTGAGTGAATGCTCTCAAGAATT
786661 CTTATTGCTCAAGAATGAAGTGATTTACAATGAGGGGAAGAGGCCTCTATTTATAGTTGA-CCAT
521 CTTATTGCTCAAGAATGAAGTGATTTACAATGAGGGGAAGAGGCCTCTATTTATAGTTGAGCC-T
**
786725 CCTTAAAATCAACGGTACAGATCAAAGTACATCAATGGCTAAGATTGAAAAGTATTTACAAAAAG
585 CCCCAAAATCAACGGTACAGATCAAAGTACATCAATGGCTAAGATTGAAAAGTATTTACAAAAAG
*
786790 AATCTCTAAGATTACAATCAAATCTCTAAGATCACAAGGATCATATCTTCTAAAATT-TCCTATC
650 AATCTCTAAGATTACAATCAAATCTCTAAGATCACAAGGATCATATCTTCTAAGATTGT-CTATC
786854 TTGAAG
714 TTGAAG
786860 AT
1 AT
786862 TACATTCCAT
Statistics
Matches: 1344, Mismatches: 85, Indels: 13
0.93 0.06 0.01
Matches are distributed among these distances:
711 205 0.15
712 299 0.22
713 2 0.00
717 1 0.00
718 443 0.33
719 394 0.29
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (719 bp):
ATCATCTCTTACTGTCAACTTATCAGTAGTGGACCTAAGAGAATCCATCACAAACTCTTTGCTAT
CCTCCCTTAGATCATCAATACGGCTCATGGCAATCTCAAGTGTCTCCTTCATGTCTCCCATGGAC
TCTTCGAGATTGACCACGCGATTCTCTAAGCTCGACAGCATGTCCCTTGATCGACTAGCCTTTCA
GGCCCTTTCGCGGGTCTTCATAGGCTCAACATGTTCAACGGTTTCTTTTGACATCTTGCAAAATG
CCTTCGCAACACTAGCTCTGATACCAACTGTCACGGACTTAGATTTTTCCCACACAATCCGTGCA
GCCTTAGGTCGCTTCTTTGCTTCAAAAACACCTAAGTCAGCCTAATTCCCAACAAATGAGGATTC
AACAGAATTTCCTCTAAGGCACCAACACAAAAGCGGAAGAACTCAAGATGAATGAATGAAGAACG
AAGAACAATGGCAAAGAAACTAAGAACACAAAAGAGAGAGTTTTGAGTGAATGCTCTCAAGAATT
CTTATTGCTCAAGAATGAAGTGATTTACAATGAGGGGAAGAGGCCTCTATTTATAGTTGAGCCTC
CCCAAAATCAACGGTACAGATCAAAGTACATCAATGGCTAAGATTGAAAAGTATTTACAAAAAGA
ATCTCTAAGATTACAATCAAATCTCTAAGATCACAAGGATCATATCTTCTAAGATTGTCTATCTT
GAAG
Found at i:792950 original size:57 final size:58
Alignment explanation
Indices: 792852--792980 Score: 140
Period size: 57 Copynumber: 2.2 Consensus size: 58
792842 AGAAATGATG
* *
792852 AAATGGAGAAATGGAAAACATTTGGAAATGATTATGATTTTCTCAAAAATG-AAAATGA
1 AAATGAAGAAATGGAAAACATTTGAAAATGA-TATGATTTTCTCAAAAATGAAAAATGA
* * **
792910 AAATGAAGAAATGG-AATCATTTGAAAATGA-ATGCAGTTTTCTCTAAGTTGAAAAAATGA
1 AAATGAAGAAATGGAAAACATTTGAAAATGATATG-A-TTTTCTCAAAAATG-AAAAATGA
792969 AAATGAA-AAATG
1 AAATGAAGAAATG
792981 ATGTTGAATG
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
55 3 0.05
56 1 0.02
57 25 0.41
58 18 0.30
59 14 0.23
ACGTcount: A:0.49, C:0.05, G:0.19, T:0.27
Consensus pattern (58 bp):
AAATGAAGAAATGGAAAACATTTGAAAATGATATGATTTTCTCAAAAATGAAAAATGA
Found at i:793246 original size:23 final size:22
Alignment explanation
Indices: 793207--793255 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 22
793197 TTATAATTTG
* *
793207 ATAATTTTTTTATAATTTTATA
1 ATAATTTTTTTAGAATTTTAGA
793229 ATAATTTATTTTAGAATTTTAGA
1 ATAATTT-TTTTAGAATTTTAGA
793252 ATAA
1 ATAA
793256 ATCTTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (22 bp):
ATAATTTTTTTAGAATTTTAGA
Found at i:800428 original size:11 final size:11
Alignment explanation
Indices: 800389--800521 Score: 52
Period size: 11 Copynumber: 11.7 Consensus size: 11
800379 TTTTTTTTTG
* *
800389 TTATTTTAATG
1 TTATTTTATTA
800400 TTATTTTATTA
1 TTATTTTATTA
* * *
800411 TTGTTTTCTTC
1 TTATTTTATTA
**
800422 TTATTTTGCTA
1 TTATTTTATTA
* *
800433 TCATTTTACTA
1 TTATTTTATTA
* *
800444 TTATATTGTTA
1 TTATTTTATTA
* *
800455 TTATTTTGTTG
1 TTATTTTATTA
*
800466 TTATTGTT-TGA
1 TTATT-TTATTA
* **
800477 ATATTGTATAACA
1 TTATT-T-TATTA
*
800490 CTTATTTTATTG
1 -TTATTTTATTA
800502 TTAATTTTATTA
1 TT-ATTTTATTA
800514 TTATTTTA
1 TTATTTTA
800522 AAAGTATTTG
Statistics
Matches: 90, Mismatches: 27, Indels: 10
0.71 0.21 0.08
Matches are distributed among these distances:
11 69 0.77
12 15 0.17
13 2 0.02
14 4 0.04
ACGTcount: A:0.23, C:0.05, G:0.08, T:0.64
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:801468 original size:27 final size:26
Alignment explanation
Indices: 801438--801489 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
801428 GAGAGAAGCA
801438 AAAGAAAATAAAAAAATAAAAAAATTT
1 AAAGAAAATAAAAAAA-AAAAAAATTT
* *
801465 AAAGGACATAAAAAAAAAAAAAATT
1 AAAGAAAATAAAAAAAAAAAAAATT
801490 ACTTAAAACG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (26 bp):
AAAGAAAATAAAAAAAAAAAAAATTT
Found at i:801702 original size:14 final size:15
Alignment explanation
Indices: 801683--801715 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
801673 TATAAATCTA
*
801683 TATTGAAAATA-AAT
1 TATTGAAAAGATAAT
801697 TATTGAAAAGATAAT
1 TATTGAAAAGATAAT
801712 TATT
1 TATT
801716 TATCATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (15 bp):
TATTGAAAAGATAAT
Found at i:806828 original size:51 final size:51
Alignment explanation
Indices: 806649--806835 Score: 189
Period size: 51 Copynumber: 3.6 Consensus size: 51
806639 TCATTTAATG
* ** * *
806649 CTCACGATGACA-TATAGTCATCGGACCCCTTTGTTCCGTATAGGAATTCATATA
1 CTCACGATGACACT-TGGTCATCGGA--CCTTTAATCCGTA-AGGGATTCATTTA
* *** * *
806703 CTCACGATGACAC-TGAGTCATCGAACCTTTAATTTATCATGGATTCATTTA
1 CTCACGATGACACTTG-GTCATCGGACCTTTAATCCGTAAGGGATTCATTTA
* *
806754 CTCACGATGACACTTAGTCATCGGTCCTTTAATCCGTAAGGGATTCATTTA
1 CTCACGATGACACTTGGTCATCGGACCTTTAATCCGTAAGGGATTCATTTA
806805 CTCACGATGACACTTGGTCATCGGACTCTTT
1 CTCACGATGACACTTGGTCATCGGAC-CTTT
806836 TGTTTATAGC
Statistics
Matches: 108, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
51 75 0.69
52 12 0.11
53 1 0.01
54 20 0.19
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (51 bp):
CTCACGATGACACTTGGTCATCGGACCTTTAATCCGTAAGGGATTCATTTA
Found at i:809510 original size:58 final size:59
Alignment explanation
Indices: 809357--809662 Score: 238
Period size: 58 Copynumber: 5.3 Consensus size: 59
809347 GGCAAAATAT
* * * *
809357 TAATTTTGGGAAAG-TTCGAGGTTAAAAAT--AAATTTTTTGACATTCGAGGGTAAAAGGG
1 TAATTTT-TGAAAGTTTCGAGGTTAAAAATGGAAA-TTTTGGACATTCGAGGGAAAAATGG
* ** * * *
809415 TAA-TTTTGAGAGTTTCGAGGTCGAAAAT-GAAGTTTTTGGACATCCGA-GGCAAAATGG
1 TAATTTTTGAAAGTTTCGAGGTTAAAAATGGAA-ATTTTGGACATTCGAGGGAAAAATGG
** *
809472 TAATTTTTGAAAGTTTCGAGGTTAAAAATGGAAATTTTGGAGGTTCAAGGGTAAAAAT-G
1 TAATTTTTGAAAGTTTCGAGGTTAAAAATGGAAATTTTGGACATTCGAGGG-AAAAATGG
* * * * *
809531 TAATTTTTTAAAGTTT-TAGGGTAAAAATGGAATTTTTGGA-AGTTTGAGGGTAAAAATGG
1 TAATTTTTGAAAGTTTCGAGGTTAAAAATGGAAATTTTGGACA-TTCGAGGG-AAAAATGG
* * * ** * *
809590 -AATTTTTGGAAGTTTTGGGGTTAAAAATGGATTTTTTGGAAATTCAAGGGTAAAAATGG
1 TAATTTTTGAAAGTTTCGAGGTTAAAAATGGAAATTTTGGACATTCGAGGG-AAAAATGG
*
809649 -AATTTTTGGAAGTT
1 TAATTTTTGAAAGTT
809663 CATGGGTAAA
Statistics
Matches: 204, Mismatches: 33, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
56 4 0.02
57 27 0.13
58 96 0.47
59 71 0.35
60 6 0.03
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (59 bp):
TAATTTTTGAAAGTTTCGAGGTTAAAAATGGAAATTTTGGACATTCGAGGGAAAAATGG
Found at i:809538 original size:29 final size:29
Alignment explanation
Indices: 809465--809899 Score: 422
Period size: 29 Copynumber: 14.8 Consensus size: 29
809455 CATCCGAGGC
* * *
809465 AAAATGGTAATTTTTGAAAGTTTCGAGGTTA
1 AAAATGG-AATTTTTGGAAGTTT-AAGGGTA
* * *
809496 AAAATGGAAATTTTGGAGGTTCAAGGGTA
1 AAAATGGAATTTTTGGAAGTTTAAGGGTA
* ** *
809525 AAAATGTAATTTTTTAAAGTTTTAGGGTA
1 AAAATGGAATTTTTGGAAGTTTAAGGGTA
*
809554 AAAATGGAATTTTTGGAAGTTTGAGGGTA
1 AAAATGGAATTTTTGGAAGTTTAAGGGTA
**
809583 AAAATGGAATTTTTGGAAGTTTTGGGGTTA
1 AAAATGGAATTTTTGGAAGTTTAAGGG-TA
* * *
809613 AAAATGGATTTTTTGGAAATTCAAGGGTA
1 AAAATGGAATTTTTGGAAGTTTAAGGGTA
* *
809642 AAAATGGAATTTTTGGAAGTTCATGGGTA
1 AAAATGGAATTTTTGGAAGTTTAAGGGTA
* * ** *
809671 AAAATAGAATTTTTGAAAGTTTTGGGGTC
1 AAAATGGAATTTTTGGAAGTTTAAGGGTA
* *
809700 AAAATGAAATTTTTGGAAGTTTGAGGGTA
1 AAAATGGAATTTTTGGAAGTTTAAGGGTA
**
809729 AAAATATAATTTTTGGAAGTTT-AGGGTTA
1 AAAATGGAATTTTTGGAAGTTTAAGGG-TA
* * **
809758 AAAATGGAATTTGTGAAAGTTCGAGGGTCA
1 AAAATGGAATTTTTGGAAGTTTAAGGGT-A
* *
809788 AAAATGTAATTTTTGGAAGTTTAGGGGTA
1 AAAATGGAATTTTTGGAAGTTTAAGGGTA
* * **
809817 AAAATGGAATTTTTTGAAGCTCGAGGGTCA
1 AAAATGGAATTTTTGGAAGTTTAAGGGT-A
* *
809847 AAAATGGAATTTTTAGAAGTTTAAGGATA
1 AAAATGGAATTTTTGGAAGTTTAAGGGTA
** *
809876 AAAATGTTATTTTTGAATAGTTTA
1 AAAATGGAATTTTTGGA-AGTTTA
809900 GGGACCTTTA
Statistics
Matches: 331, Mismatches: 67, Indels: 13
0.81 0.16 0.03
Matches are distributed among these distances:
28 4 0.01
29 228 0.69
30 92 0.28
31 7 0.02
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.36
Consensus pattern (29 bp):
AAAATGGAATTTTTGGAAGTTTAAGGGTA
Found at i:809644 original size:59 final size:59
Alignment explanation
Indices: 809465--809890 Score: 409
Period size: 59 Copynumber: 7.3 Consensus size: 59
809455 CATCCGAGGC
* * * * * *
809465 AAAATGGTAATTTTTGAAAGTTTCGAGGTTAAAAATGGAAATTTTGGAGGTTCAAGGGTA
1 AAAATGG-AATTTTTGGAAGTTTTGGGGTTAAAAATGGAATTTTTGGAAGTTTAAGGGTA
* ** * *
809525 AAAATGTAATTTTTTAAAGTTTTAGGG-TAAAAATGGAATTTTTGGAAGTTTGAGGGTA
1 AAAATGGAATTTTTGGAAGTTTTGGGGTTAAAAATGGAATTTTTGGAAGTTTAAGGGTA
* * *
809583 AAAATGGAATTTTTGGAAGTTTTGGGGTTAAAAATGGATTTTTTGGAAATTCAAGGGTA
1 AAAATGGAATTTTTGGAAGTTTTGGGGTTAAAAATGGAATTTTTGGAAGTTTAAGGGTA
* * * ** *
809642 AAAATGGAATTTTTGGAAGTTCAT-GGG-TAAAAATAGAATTTTTGAAAGTTTTGGGGTC
1 AAAATGGAATTTTTGGAAGTT-TTGGGGTTAAAAATGGAATTTTTGGAAGTTTAAGGGTA
* **
809700 AAAATGAAATTTTTGGAAG-TTTGAGGG-TAAAAATATAATTTTTGGAAGTTT-AGGGTTA
1 AAAATGGAATTTTTGGAAGTTTTG-GGGTTAAAAATGGAATTTTTGGAAGTTTAAGGG-TA
* * * * * *
809758 AAAATGGAATTTGTGAAAG-TTCGAGGGTCAAAAATGTAATTTTTGGAAGTTTAGGGGTA
1 AAAATGGAATTTTTGGAAGTTTTG-GGGTTAAAAATGGAATTTTTGGAAGTTTAAGGGTA
* * * * * *
809817 AAAATGGAATTTTTTGAAG-CTCGAGGGTCAAAAATGGAATTTTTAGAAGTTTAAGGATA
1 AAAATGGAATTTTTGGAAGTTTTG-GGGTTAAAAATGGAATTTTTGGAAGTTTAAGGGTA
**
809876 AAAATGTTATTTTTG
1 AAAATGGAATTTTTG
809891 AATAGTTTAG
Statistics
Matches: 309, Mismatches: 50, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
56 1 0.00
57 4 0.01
58 140 0.45
59 154 0.50
60 10 0.03
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.36
Consensus pattern (59 bp):
AAAATGGAATTTTTGGAAGTTTTGGGGTTAAAAATGGAATTTTTGGAAGTTTAAGGGTA
Done.