Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 179 of 204
Found at i:52954195 original size:14 final size:14
Alignment explanation
Indices: 52954176--52954222 Score: 76
Period size: 14 Copynumber: 3.4 Consensus size: 14
52954166 TTTTTTAATT
*
52954176 TTTGGGTTTGTAAA
1 TTTGGGCTTGTAAA
52954190 TTTGGGCTTGTAAA
1 TTTGGGCTTGTAAA
*
52954204 TTTAGGCTTGTAAA
1 TTTGGGCTTGTAAA
52954218 TTTGG
1 TTTGG
52954223 ACTTTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.21, C:0.04, G:0.28, T:0.47
Consensus pattern (14 bp):
TTTGGGCTTGTAAA
Found at i:52954348 original size:20 final size:21
Alignment explanation
Indices: 52954310--52954350 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
52954300 TAACTTTTAA
52954310 TAAAATATTAATAATATTATT
1 TAAAATATTAATAATATTATT
52954331 TAAAAT-TTAA-AATAATTATT
1 TAAAATATTAATAAT-ATTATT
52954351 AATATTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.16
20 10 0.53
21 6 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TAAAATATTAATAATATTATT
Found at i:52969309 original size:18 final size:18
Alignment explanation
Indices: 52969288--52969328 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
52969278 CATTTCCAGA
*
52969288 ATTTTTTCTATAATTAAT
1 ATTTTTTCTATAAGTAAT
*
52969306 ATTTTTTGTATAAGTAAT
1 ATTTTTTCTATAAGTAAT
52969324 ATTTT
1 ATTTT
52969329 ATATCACTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (18 bp):
ATTTTTTCTATAAGTAAT
Found at i:52973419 original size:19 final size:19
Alignment explanation
Indices: 52973395--52973434 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
52973385 ATTTTATAAC
*
52973395 TTTTTGTATAATTAATATT
1 TTTTTGTATAAGTAATATT
52973414 TTTTTGTATAAGTAATATT
1 TTTTTGTATAAGTAATATT
52973433 TT
1 TT
52973435 ATATAACTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.62
Consensus pattern (19 bp):
TTTTTGTATAAGTAATATT
Found at i:52974658 original size:39 final size:39
Alignment explanation
Indices: 52974604--52974683 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
52974594 CCTTGAAAAG
52974604 TATACTTAATTTGCAATCTTAATTAATTAGTTTTTCTAA
1 TATACTTAATTTGCAATCTTAATTAATTAGTTTTTCTAA
52974643 TATACTTAATTTGCAATCTTAATTAATTAGTTTTTCTAA
1 TATACTTAATTTGCAATCTTAATTAATTAGTTTTTCTAA
52974682 TA
1 TA
52974684 AATTTCTTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.34, C:0.10, G:0.05, T:0.51
Consensus pattern (39 bp):
TATACTTAATTTGCAATCTTAATTAATTAGTTTTTCTAA
Found at i:52976670 original size:50 final size:50
Alignment explanation
Indices: 52976589--52976689 Score: 141
Period size: 50 Copynumber: 2.0 Consensus size: 50
52976579 ACCTTATTCT
* * **
52976589 AATCAAAGTAAACTAGAGGAAGTGTAGTTCTATATTGATTCTACTTGTGC
1 AATCAAAGTAAACTAGAAGAAGAGTAGTTCTATACAGATTCTACTTGTGC
*
52976639 AATCAATGTCAAA-TAGAAGAAGAGTAGTTCTATACAGATTCTACTTGTGC
1 AATCAAAGT-AAACTAGAAGAAGAGTAGTTCTATACAGATTCTACTTGTGC
52976689 A
1 A
52976690 GCCTGATCCG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
50 42 0.93
51 3 0.07
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (50 bp):
AATCAAAGTAAACTAGAAGAAGAGTAGTTCTATACAGATTCTACTTGTGC
Found at i:52983347 original size:14 final size:14
Alignment explanation
Indices: 52983326--52983359 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
52983316 TGGTATGGGT
52983326 TTAT-GGGTTTTGG
1 TTATAGGGTTTTGG
52983339 TTATAGGGTTTTGG
1 TTATAGGGTTTTGG
52983353 TTATAGG
1 TTATAGG
52983360 CAAATGATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (14 bp):
TTATAGGGTTTTGG
Found at i:52983514 original size:23 final size:24
Alignment explanation
Indices: 52983488--52983535 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
52983478 ATATGAAAGT
52983488 TTAAAGAACATAAAA-GAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAA
** *
52983511 TTAAATTACTTAAAACGAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAA
52983535 T
1 T
52983536 ATGGGGATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.21
Consensus pattern (24 bp):
TTAAAGAACATAAAACGAAAAAAA
Found at i:52985241 original size:15 final size:16
Alignment explanation
Indices: 52985221--52985250 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
52985211 TGATTCTTTT
52985221 GAAAAAA-AATAAAAA
1 GAAAAAATAATAAAAA
52985236 GAAAAAATAATAAAA
1 GAAAAAATAATAAAA
52985251 TAAAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (16 bp):
GAAAAAATAATAAAAA
Found at i:52986460 original size:38 final size:38
Alignment explanation
Indices: 52986281--52986463 Score: 213
Period size: 38 Copynumber: 4.8 Consensus size: 38
52986271 TGTAATGTTA
* * ** *
52986281 ATTCGGGCTCTATGCCTAGTAGGCTTCATGCCGGTGAT
1 ATTCGGGCTTTGTGCCTAGTAGGCTTTGTGCCAGTGAT
* *
52986319 ATTCGGTCTTTGTGCCTAGTAGGCTTTATGCCAGTGAT
1 ATTCGGGCTTTGTGCCTAGTAGGCTTTGTGCCAGTGAT
* * * *
52986357 ATTCAGGCTTTGTGCCTAGCAGGATTTGTGCCGGTGAT
1 ATTCGGGCTTTGTGCCTAGTAGGCTTTGTGCCAGTGAT
* * * *
52986395 ATTTGGGCTTTGTGCTTAGCAAGCTTTGTGCCAGTGAT
1 ATTCGGGCTTTGTGCCTAGTAGGCTTTGTGCCAGTGAT
* *
52986433 ATTTGGGCTTTATGCCTAGTAGGCTTTGTGC
1 ATTCGGGCTTTGTGCCTAGTAGGCTTTGTGC
52986464 TGGTGTAATT
Statistics
Matches: 124, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 124 1.00
ACGTcount: A:0.15, C:0.19, G:0.29, T:0.37
Consensus pattern (38 bp):
ATTCGGGCTTTGTGCCTAGTAGGCTTTGTGCCAGTGAT
Found at i:52986750 original size:39 final size:39
Alignment explanation
Indices: 52986707--52986783 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
52986697 GAAAAGATTG
* *
52986707 ATGATTATGTATTATGACTTAGAAATCTCAGTATGTTAA
1 ATGATTATGTATTACGACTTAGAAATCCCAGTATGTTAA
*
52986746 ATGATTATGTATTACGACTTATAAATCCCAGTATGTTA
1 ATGATTATGTATTACGACTTAGAAATCCCAGTATGTTA
52986784 TATATGGGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.40
Consensus pattern (39 bp):
ATGATTATGTATTACGACTTAGAAATCCCAGTATGTTAA
Found at i:52989034 original size:32 final size:32
Alignment explanation
Indices: 52988998--52989059 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
52988988 TTTCGATATC
*
52988998 TAACATCGAATCAAAATTTGATTTCACATTAA
1 TAACATCGAATCAAAATCTGATTTCACATTAA
52989030 TAACATCGAATCAAAATCTGATTTCACATT
1 TAACATCGAATCAAAATCTGATTTCACATT
52989060 CTTTCATTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.34
Consensus pattern (32 bp):
TAACATCGAATCAAAATCTGATTTCACATTAA
Found at i:52994885 original size:72 final size:73
Alignment explanation
Indices: 52994699--52994891 Score: 230
Period size: 72 Copynumber: 2.6 Consensus size: 73
52994689 AAGTATAAGT
* * * *
52994699 AATATCAAATCTAAATATTTAAAAAGGTAAAAGAATAATAAATAAATAGATAAATAGATAAAACA
1 AATATTAAATTTAAGTATTTAAAAA-GTAAAAGAATAATAAATAAATAAATAAATAGATAAAACA
*
52994764 AATATACAT
65 AATATACAA
* * * * *
52994773 AATATTATATTTAAGTATTTTAGAAGTAAAAGAATGATAAATAAATAAATAAATCGAT-AAA-AA
1 AATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAATAGATAAAACAA
52994836 ATATA-AA
66 ATATACAA
* *
52994843 AATTTATTAAATTTAAGTATTTAAAAAGTTAAAGAATAATAAACAAATA
1 AA--TATTAAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATA
52994892 TAAATAATAT
Statistics
Matches: 101, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
70 3 0.03
71 7 0.07
72 42 0.42
73 30 0.30
74 19 0.19
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (73 bp):
AATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAATAGATAAAACAA
ATATACAA
Found at i:52994903 original size:52 final size:51
Alignment explanation
Indices: 52994829--52994943 Score: 153
Period size: 52 Copynumber: 2.2 Consensus size: 51
52994819 AAATAAATCG
*
52994829 ATAAAAAATATAAAAATTTATTAAATTTA-AGTATTTAAAAAGTTAAAGAATA
1 ATAAAAAATATAAAAA-TTATTAAATTTAGA-TATTTAAAAAGTAAAAGAATA
*
52994881 ATAAACAAATATAAATAA-TATTAAATTTAGATATTTAAAGAGTAAAAGAATA
1 ATAAA-AAATATAAA-AATTATTAAATTTAGATATTTAAAAAGTAAAAGAATA
52994933 ATAAATAAATA
1 ATAAA-AAATA
52994944 GATAGAAAAT
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
52 45 0.79
53 10 0.18
54 2 0.04
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.32
Consensus pattern (51 bp):
ATAAAAAATATAAAAATTATTAAATTTAGATATTTAAAAAGTAAAAGAATA
Found at i:52994966 original size:69 final size:69
Alignment explanation
Indices: 52994880--52995096 Score: 258
Period size: 69 Copynumber: 3.2 Consensus size: 69
52994870 GTTAAAGAAT
52994880 AATA-AACAAATATAAATAATATTAAATTTAGATATTT-AAAGAGTAAAAGAATAATAAATAAAT
1 AATATAACAAATATAAATAATATTAAATTTAG-TATTTGAAA-AGTAAAAGAATAATAAATAAAT
*
52994943 AGATAG
64 AAATAG
* * * * *
52994949 AAAAT-A-TAA-A-AAA-AA-A-TAGATTTAAGTATTTGAAAAGTAAAAGAATGATAAACAAATA
1 AATATAACAAATATAAATAATATTAAATTT-AGTATTTGAAAAGTAAAAGAATAATAAATAAATA
52995007 AATAG
65 AATAG
52995012 -ATATAACAAATATAAATAATATTAAATTTATGTATTTGAAAAGTAAAAGAATAATAAATAAATA
1 AATATAACAAATATAAATAATATTAAATTTA-GTATTTGAAAAGTAAAAGAATAATAAATAAATA
52995076 AATAG
65 AATAG
*
52995081 -ATAAAACAAATATAAA
1 AATATAACAAATATAAA
52995097 AGGATGAAAT
Statistics
Matches: 125, Mismatches: 12, Indels: 22
0.79 0.08 0.14
Matches are distributed among these distances:
62 3 0.02
63 37 0.30
64 8 0.06
65 3 0.02
66 6 0.05
67 3 0.02
68 4 0.03
69 61 0.49
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.28
Consensus pattern (69 bp):
AATATAACAAATATAAATAATATTAAATTTAGTATTTGAAAAGTAAAAGAATAATAAATAAATAA
ATAG
Found at i:52994972 original size:63 final size:64
Alignment explanation
Indices: 52994877--52995081 Score: 231
Period size: 63 Copynumber: 3.2 Consensus size: 64
52994867 AAAGTTAAAG
*
52994877 AATA-ATAAACAAATATAAATAATATTAAATTTAGATATTT-AAAGAGTAAAAGAATAATAAATA
1 AATAGATAGACAAATATAAATAATATTAAATTTAGATATTTGAAA-AGTAAAAGAATAATAAATA
* * * * *
52994940 AATAGATAGA-AAATATAAAAAAAAATAGATTTA-AGTATTTGAAAAGTAAAAGAATGATAAACA
1 AATAGATAGACAAATATAAATAATATTAAATTTAGA-TATTTGAAAAGTAAAAG-A--AT-AATA
52995003 AATA
61 AATA
*
52995007 AATAGATATAACAAATATAAATAATATTAAATTTATG-TATTTGAAAAGTAAAAGAATAATAAAT
1 AATAGATA-GACAAATATAAATAATATTAAATTTA-GATATTTGAAAAGTAAAAGAATAATAAAT
52995071 A
64 A
*
52995072 AATAAATAGA
1 AATAGATAGA
52995082 TAAAACAAAT
Statistics
Matches: 117, Mismatches: 14, Indels: 21
0.77 0.09 0.14
Matches are distributed among these distances:
62 1 0.01
63 36 0.31
64 9 0.08
65 14 0.12
66 4 0.03
67 15 0.13
68 2 0.02
69 36 0.31
ACGTcount: A:0.61, C:0.01, G:0.09, T:0.28
Consensus pattern (64 bp):
AATAGATAGACAAATATAAATAATATTAAATTTAGATATTTGAAAAGTAAAAGAATAATAAATA
Found at i:52998782 original size:16 final size:16
Alignment explanation
Indices: 52998761--52998813 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
52998751 ATACAAATTT
52998761 GATTAAAAGGTGATTG
1 GATTAAAAGGTGATTG
** *
52998777 GATTAAAATTATAATTG
1 GATTAAAA-GGTGATTG
*
52998794 AATTAAAAGGTGATTG
1 GATTAAAAGGTGATTG
52998810 GATT
1 GATT
52998814 TTAAAGTCGG
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
16 16 0.57
17 12 0.43
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.36
Consensus pattern (16 bp):
GATTAAAAGGTGATTG
Found at i:53001643 original size:53 final size:52
Alignment explanation
Indices: 53001563--53001743 Score: 190
Period size: 53 Copynumber: 3.7 Consensus size: 52
53001553 TTAGATTTTG
*
53001563 TTAC-AACAATTAATACAATTAATAATTAATAATTTGATATAATTTGATAATT
1 TTACTAACAATTAATACAATTAACAATTAATAATTT-ATATAATTTGATAATT
* * *
53001615 TTACTAACAATTAATACAATTAACAATTAATAATTT-TACTAA---CAAAATA
1 TTACTAACAATTAATACAATTAACAATTAATAATTTATA-TAATTTGATAATT
* *
53001664 TTAGTAACAATTAAT--AATT---AA-TAAT--TTAATATAATTTGATAATT
1 TTACTAACAATTAATACAATTAACAATTAATAATTTATATAATTTGATAATT
*
53001708 TTAGTAACAATTAATACAATTAACAATTAATAATTT
1 TTACTAACAATTAATACAATTAACAATTAATAATTT
53001744 TATTAACAAA
Statistics
Matches: 105, Mismatches: 10, Indels: 28
0.73 0.07 0.20
Matches are distributed among these distances:
41 5 0.05
42 2 0.02
43 4 0.04
44 21 0.20
46 4 0.04
47 4 0.04
49 20 0.19
50 4 0.04
51 2 0.02
52 9 0.09
53 30 0.29
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (52 bp):
TTACTAACAATTAATACAATTAACAATTAATAATTTATATAATTTGATAATT
Found at i:53001677 original size:33 final size:34
Alignment explanation
Indices: 53001609--53001682 Score: 105
Period size: 33 Copynumber: 2.2 Consensus size: 34
53001599 ATATAATTTG
*
53001609 ATAATTTTACTAACAATTAATACAATTAACAATTA
1 ATAATTTTACTAACAA-TAATACAAGTAACAATTA
**
53001644 ATAATTTTACTAACAA-AATATTAGTAACAATTA
1 ATAATTTTACTAACAATAATACAAGTAACAATTA
53001677 ATAATT
1 ATAATT
53001683 AATAATTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 20 0.56
35 16 0.44
ACGTcount: A:0.51, C:0.09, G:0.01, T:0.38
Consensus pattern (34 bp):
ATAATTTTACTAACAATAATACAAGTAACAATTA
Found at i:53001680 original size:93 final size:93
Alignment explanation
Indices: 53001577--53001760 Score: 332
Period size: 93 Copynumber: 2.0 Consensus size: 93
53001567 AACAATTAAT
*
53001577 ACAATTAATAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
1 ACAATTAATAATTAATAATTTAATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
53001642 TAATAATTTTACTAACAAAATATTAGTA
66 TAATAATTTTACTAACAAAATATTAGTA
*
53001670 ACAATTAATAATTAATAATTTAATATAATTTGATAATTTTAGTAACAATTAATACAATTAACAAT
1 ACAATTAATAATTAATAATTTAATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
* *
53001735 TAATAATTTTATTAACAAAATGTTAG
66 TAATAATTTTACTAACAAAATATTAG
53001761 ATTTTACAAA
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 87 1.00
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (93 bp):
ACAATTAATAATTAATAATTTAATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
TAATAATTTTACTAACAAAATATTAGTA
Found at i:53001748 original size:19 final size:19
Alignment explanation
Indices: 53001609--53001752 Score: 62
Period size: 16 Copynumber: 7.8 Consensus size: 19
53001599 ATATAATTTG
*
53001609 ATAATTTTACTAACAATTA
1 ATAATTTTATTAACAATTA
53001628 ATACA----ATTAACAATTA
1 ATA-ATTTTATTAACAATTA
*
53001644 ATAATTTTACTAACAA--A
1 ATAATTTTATTAACAATTA
*
53001661 AT-A--TTAGTAACAATTA
1 ATAATTTTATTAACAATTA
* * *
53001677 ATAATTAATAATTTAATATAATTTG
1 ATAATT--TTA-TT-A-ACAA-TTA
*
53001702 ATAATTTTAGTAACAATTA
1 ATAATTTTATTAACAATTA
53001721 ATACA----ATTAACAATTA
1 ATA-ATTTTATTAACAATTA
53001737 ATAATTTTATTAACAA
1 ATAATTTTATTAACAA
53001753 AATGTTAGAT
Statistics
Matches: 92, Mismatches: 12, Indels: 42
0.63 0.08 0.29
Matches are distributed among these distances:
14 9 0.10
15 2 0.02
16 30 0.33
17 4 0.04
19 23 0.25
20 5 0.05
21 3 0.03
22 2 0.02
23 3 0.03
24 3 0.03
25 8 0.09
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.40
Consensus pattern (19 bp):
ATAATTTTATTAACAATTA
Found at i:53001826 original size:16 final size:16
Alignment explanation
Indices: 53001807--53001863 Score: 96
Period size: 16 Copynumber: 3.6 Consensus size: 16
53001797 AATTTGATAC
53001807 AATTTTAATAACAATT
1 AATTTTAATAACAATT
*
53001823 AATTTTGATAACAATT
1 AATTTTAATAACAATT
53001839 AATTTTAATAACAATT
1 AATTTTAATAACAATT
*
53001855 AGTTTTAAT
1 AATTTTAAT
53001864 TTTAATAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.46
Consensus pattern (16 bp):
AATTTTAATAACAATT
Found at i:53001846 original size:22 final size:23
Alignment explanation
Indices: 53001837--53001898 Score: 90
Period size: 22 Copynumber: 2.7 Consensus size: 23
53001827 TTGATAACAA
* *
53001837 TTAATTTTAATAACAAT-TAGTT
1 TTAATTTTAATAAAAATATAATT
53001859 TTAATTTTAATAAAAATATAATT
1 TTAATTTTAATAAAAATATAATT
53001882 TTAATTTTAATTAAAAA
1 TTAATTTTAA-TAAAAA
53001899 CAGGTCGGGC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 16 0.44
23 14 0.39
24 6 0.17
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAATTTTAATAAAAATATAATT
Found at i:53003357 original size:4 final size:4
Alignment explanation
Indices: 53003348--53003384 Score: 56
Period size: 4 Copynumber: 9.0 Consensus size: 4
53003338 GTAAAAAATG
*
53003348 ATAA ATAA ATAA ATAA ATAG ATAA ATAA TATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA -ATAA ATAA
53003385 TATTAAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 26 0.87
5 4 0.13
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:53003392 original size:70 final size:73
Alignment explanation
Indices: 53003283--53003429 Score: 210
Period size: 70 Copynumber: 2.1 Consensus size: 73
53003273 GTAAAAGAAT
* * *
53003283 AATAAATAAATAGATAAAACAAATATACATAATATTAAATTTAAGTATTTTAGAAG-TAAAAAAT
1 AATAAATAAATAGATAAAACAAATATAAATAATATTAAATTTAAGTATTTAAAAAGTTAAAAAAT
* *
53003347 GATAAATA
66 AATAAACA
* *
53003355 AATAAATAAATAGAT-AAA-TAATATAAATAATATTAAATTTAAGTATTTAAAAAGTTAAAGAAT
1 AATAAATAAATAGATAAAACAAATATAAATAATATTAAATTTAAGTATTTAAAAAGTTAAAAAAT
53003418 AATAAACA
66 AATAAACA
53003426 AATA
1 AATA
53003430 TAAATAATAT
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
70 32 0.48
71 20 0.30
72 15 0.22
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (73 bp):
AATAAATAAATAGATAAAACAAATATAAATAATATTAAATTTAAGTATTTAAAAAGTTAAAAAAT
AATAAACA
Found at i:53003441 original size:52 final size:52
Alignment explanation
Indices: 53003374--53003481 Score: 173
Period size: 52 Copynumber: 2.1 Consensus size: 52
53003364 ATAGATAAAT
*
53003374 AATATAAATAATATTAAATTTA-AGTATTTAAAAAGTTAAAGAATAATAAACA
1 AATATAAATAATATTAAATTTAGA-TATTTAAAAAGTAAAAGAATAATAAACA
* *
53003426 AATATAAATAATATTAAATTTAGATATTTAAAGAGTAAAAGAATAATAAATA
1 AATATAAATAATATTAAATTTAGATATTTAAAAAGTAAAAGAATAATAAACA
53003478 AATA
1 AATA
53003482 GATAAAAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
52 51 0.98
53 1 0.02
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.32
Consensus pattern (52 bp):
AATATAAATAATATTAAATTTAGATATTTAAAAAGTAAAAGAATAATAAACA
Found at i:53003479 original size:22 final size:22
Alignment explanation
Indices: 53003454--53003497 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
53003444 TTTAGATATT
*
53003454 TAAAGAG-TAAAAGAATAATAAA
1 TAAAGAGATAAAAAAAT-ATAAA
*
53003476 TAAATAGATAAAAAAATATAAA
1 TAAAGAGATAAAAAAATATAAA
53003498 AAAAATTAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.20
Consensus pattern (22 bp):
TAAAGAGATAAAAAAATATAAA
Found at i:53003539 original size:116 final size:121
Alignment explanation
Indices: 53003299--53003545 Score: 328
Period size: 116 Copynumber: 2.1 Consensus size: 121
53003289 TAAATAGATA
* *
53003299 AAACAAATATACATAATATTAAATTTAAGTATTTTAGAAGTAAAAAATGATAAATAAATAAATAA
1 AAACAAATATAAATAATATTAAATTTAAGTATTTAAGAAGTAAAAAA-GATAAATAAATAAATAA
* * *
53003364 ATAGATAAATAATATAAATAATATTAAATTTAAGTATTTAAAAAGTTAAAGAATAAT
65 ATAGATAAATAATATAAAAAAAATTAAATTTAAGTATTTAAAAAGTAAAAGAATAAT
*
53003421 AAACAAATATAAATAATATTAAATTT-AGATATTTAA-AGAGTAAAAGA-AT-AATAAATAAATA
1 AAACAAATATAAATAATATTAAATTTAAG-TATTTAAGA-AGTAAAAAAGATAAATAAATAAATA
* * * *
53003482 GATA-A-AAA-AATATAAAAAAAATTAGATTTAAGTATTTGAAAAGTAAAAGAATGAT
64 AATAGATAAATAATATAAAAAAAATTAAATTTAAGTATTTAAAAAGTAAAAGAATAAT
53003537 AAACAAATA
1 AAACAAATA
53003546 AATAGATATA
Statistics
Matches: 113, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
116 50 0.44
117 3 0.03
118 1 0.01
119 15 0.13
120 2 0.02
121 3 0.03
122 39 0.35
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.30
Consensus pattern (121 bp):
AAACAAATATAAATAATATTAAATTTAAGTATTTAAGAAGTAAAAAAGATAAATAAATAAATAAA
TAGATAAATAATATAAAAAAAATTAAATTTAAGTATTTAAAAAGTAAAAGAATAAT
Found at i:53003593 original size:69 final size:67
Alignment explanation
Indices: 53003415--53003635 Score: 297
Period size: 69 Copynumber: 3.3 Consensus size: 67
53003405 AAAGTTAAAG
* *
53003415 AATA-ATAAACAAATATAAATAATATTAAATTTAGATATTTAAAGAGTAAAAG-A-AT-AATAAA
1 AATAGATAAACAAATATAAATAATATTAAATTTAGGTATTTAAAAAGTAAAAGAATATAAATAAA
53003476 TA
66 TA
* * * * * * *
53003478 AATAGATAAAAAAATATAAAAAAAATTAGATTTAAGTATTTGAAAAGTAAAAGAATGATAAACAA
1 AATAGATAAACAAATATAAATAATATTAAATTTAGGTATTTAAAAAGTAAAAGAAT-ATAAATAA
53003543 ATA
65 ATA
53003546 AATAGATATAACAAATATAAATAATATTAAATTTAGGTATTTAAAAAGTAAAAGAATAATAAATA
1 AATAGATA-AACAAATATAAATAATATTAAATTTAGGTATTTAAAAAGTAAAAGAAT-ATAAATA
53003611 AATA
64 AATA
53003615 AATAGATAAAACAAATATAAA
1 AATAGAT-AAACAAATATAAA
53003636 AGGATGAAAT
Statistics
Matches: 134, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
63 4 0.03
64 40 0.30
65 1 0.01
67 2 0.01
68 15 0.11
69 71 0.53
70 1 0.01
ACGTcount: A:0.63, C:0.02, G:0.08, T:0.28
Consensus pattern (67 bp):
AATAGATAAACAAATATAAATAATATTAAATTTAGGTATTTAAAAAGTAAAAGAATATAAATAAA
TA
Found at i:53005091 original size:51 final size:49
Alignment explanation
Indices: 53005013--53005201 Score: 131
Period size: 51 Copynumber: 3.9 Consensus size: 49
53005003 GATAATATTA
* * * *
53005013 GTAGCTTTAATCTACTCCGCTGTAACTTTTGGAAGTTAAGATTTATAACTC
1 GTAGCTTTAATCTGCTCCACTGCAACTTATGGAA-TTAAGATTT-TAACTC
* *
53005064 GTAGCTTTAATCTGTTCCACTGCAACTTCATGG-ATATAAGA--TT--CGC
1 GTAGCTTTAATCTGCTCCACTGCAACTT-ATGGAAT-TAAGATTTTAACTC
* * * * * *
53005110 -TATCTTCAATCTGCTCCATTGTAACTTCA-GGAAATAAGATTTGTAACTT
1 GTAGCTTTAATCTGCTCCACTGCAACTT-ATGGAATTAAGATTT-TAACTC
* * *
53005159 GTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATT
1 GTAGCTTTAATCTGCTCCACTGCAACTT-ATGGAATTAAGATT
53005202 CTCTATATTC
Statistics
Matches: 109, Mismatches: 19, Indels: 20
0.74 0.13 0.14
Matches are distributed among these distances:
44 7 0.06
45 25 0.23
46 3 0.03
47 1 0.01
48 1 0.01
49 2 0.02
50 25 0.23
51 42 0.39
52 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.37
Consensus pattern (49 bp):
GTAGCTTTAATCTGCTCCACTGCAACTTATGGAATTAAGATTTTAACTC
Found at i:53005136 original size:45 final size:45
Alignment explanation
Indices: 53005072--53005321 Score: 198
Period size: 45 Copynumber: 5.5 Consensus size: 45
53005062 TCGTAGCTTT
* * *
53005072 AATCTGTTCCACTGCAACTTCATGGATATAAGATTCGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTC
* * * * *
53005117 AATCTGCTCCATTGTAACTTCA-GGAAATAAGATTTGTAACTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCG---C---TATCTTC
* * *
53005167 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCTCTATATTC
1 AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTC
* * * * * * *
53005212 AATTTGCTCCACTGCAACTTTAGGGAGATAAAATTTG-TAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTC
* * * * * *
53005256 AATATGTTCCACTGCAACTTCAGGGAGATAAGATTCACCATATTC
1 AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTC
* *
53005301 AATCTACTCCACTGTAACTTC
1 AATCTGCTCCACTGCAACTTC
53005322 TAGGAGATAA
Statistics
Matches: 158, Mismatches: 39, Indels: 16
0.74 0.18 0.08
Matches are distributed among these distances:
44 47 0.30
45 73 0.46
47 1 0.01
48 1 0.01
50 24 0.15
51 12 0.08
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.34
Consensus pattern (45 bp):
AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTC
Found at i:53005149 original size:95 final size:95
Alignment explanation
Indices: 53005021--53005336 Score: 358
Period size: 95 Copynumber: 3.4 Consensus size: 95
53005011 TAGTAGCTTT
* * ** * *
53005021 AATCTACTCCGCTGTAACTTTTGGAAGTTAAGATTTATAACTCGTAGCTTTAATCTGTTCCACTG
1 AATCTGCTCCACTGTAACTTCAGG-AGATAAGATTTATAACTTGTAGCTTTAATCTGTTCCACTG
* * * *
53005086 CAACTTCATGGATATAAGATTCGCTATCTTC
65 CAACTTCAGGGAAATAAGATTCACTATATTC
* * *
53005117 AATCTGCTCCATTGTAACTTCAGGAAATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTGC
1 AATCTGCTCCACTGTAACTTCAGGAGATAAGATTTATAACTTGTAGCTTTAATCTGTTCCACTGC
*
53005182 AACTTCAGGGAAATAAGATTCTCTATATTC
66 AACTTCAGGGAAATAAGATTCACTATATTC
* * * *
53005212 AATTTGCTCCACTGCAACTTTAGGGAGATAA-A---AT---TTGTAGCTTTAATATGTTCCACTG
1 AATCTGCTCCACTGTAACTTCA-GGAGATAAGATTTATAACTTGTAGCTTTAATCTGTTCCACTG
* *
53005270 CAACTTCAGGGAGATAAGATTCACCATATTC
65 CAACTTCAGGGAAATAAGATTCACTATATTC
* *
53005301 AATCTACTCCACTGTAACTTCTAGGAGATAAAATTT
1 AATCTGCTCCACTGTAACTTC-AGGAGATAAGATTT
53005337 GTGGCTTTAA
Statistics
Matches: 187, Mismatches: 27, Indels: 15
0.82 0.12 0.07
Matches are distributed among these distances:
89 76 0.41
90 2 0.01
92 1 0.01
95 82 0.44
96 26 0.14
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (95 bp):
AATCTGCTCCACTGTAACTTCAGGAGATAAGATTTATAACTTGTAGCTTTAATCTGTTCCACTGC
AACTTCAGGGAAATAAGATTCACTATATTC
Found at i:53005287 original size:89 final size:88
Alignment explanation
Indices: 53005064--53005366 Score: 354
Period size: 89 Copynumber: 3.3 Consensus size: 88
53005054 TTTATAACTC
* * * * *
53005064 GTAGCTTTAATCTGTTCCACTGCAACTTCATGGATATAAGATTCGCTATCTTCAATCTGCTCCAT
1 GTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCACTATATTCAATCTGCTCCAC
* * *
53005129 TGTAACTTCAGGAAATAAGATTTGTAACTT
66 TGTAACTTTAGGAGAT-A-A-----AATTT
* *
53005159 GTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCTCTATATTCAATTTGCTCCAC
1 GTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCACTATATTCAATCTGCTCCAC
*
53005224 TGCAACTTTAGGGAGATAAAATTT
66 TGTAACTTTA-GGAGATAAAATTT
* * * *
53005248 GTAGCTTTAATATGTTCCACTGCAACTTCAGGGAGATAAGATTCACCATATTCAATCTACTCCAC
1 GTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCACTATATTCAATCTGCTCCAC
53005313 TGTAACTTCTAGGAGATAAAATTT
66 TGTAACTT-TAGGAGATAAAATTT
* ** *
53005337 GTGGCTTTAATCTACTCCACTGTAACTTCA
1 GTAGCTTTAATCTGTTCCACTGCAACTTCA
53005367 CGGCGTCATT
Statistics
Matches: 184, Mismatches: 22, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
89 108 0.59
90 2 0.01
94 1 0.01
95 68 0.37
96 5 0.03
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (88 bp):
GTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCACTATATTCAATCTGCTCCAC
TGTAACTTTAGGAGATAAAATTT
Found at i:53005359 original size:44 final size:45
Alignment explanation
Indices: 53005157--53005365 Score: 169
Period size: 45 Copynumber: 4.7 Consensus size: 45
53005147 GATTTGTAAC
** * *
53005157 TTGTAGCTTTAATCTGTTCCACTGCAACTTC-AGGGAAATAAGAT
1 TTGTAGCTTTAATCTACTCCACTGCAACTTCTAGGGAGATAAAAT
* ** * * *
53005201 TCTCTATATTCAATTTGCTCCACTGCAACTT-TAGGGAGATAAAAT
1 T-TGTAGCTTTAATCTACTCCACTGCAACTTCTAGGGAGATAAAAT
* ** *
53005246 TTGTAGCTTTAATATGTTCCACTGCAACTTC-AGGGAGATAAGA-
1 TTGTAGCTTTAATCTACTCCACTGCAACTTCTAGGGAGATAAAAT
* * *
53005289 TT-CACCATATTCAATCTACTCCACTGTAACTTCTA-GGAGATAAAAT
1 TTGTAGC-T-TT-AATCTACTCCACTGCAACTTCTAGGGAGATAAAAT
* *
53005335 TTGTGGCTTTAATCTACTCCACTGTAACTTC
1 TTGTAGCTTTAATCTACTCCACTGCAACTTC
53005366 ACGGCGTCAT
Statistics
Matches: 131, Mismatches: 25, Indels: 18
0.75 0.14 0.10
Matches are distributed among these distances:
42 2 0.02
43 3 0.02
44 58 0.44
45 63 0.48
46 4 0.03
47 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.35
Consensus pattern (45 bp):
TTGTAGCTTTAATCTACTCCACTGCAACTTCTAGGGAGATAAAAT
Found at i:53005985 original size:24 final size:24
Alignment explanation
Indices: 53005941--53005999 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 24
53005931 ATTTAATGTT
*
53005941 ATTTACTTGTTTTATTTATTTATTC
1 ATTTA-TTGTTTTATTTATTTAGTC
53005966 ATTTATT-TTTTATGTTATTTAGTC
1 ATTTATTGTTTTAT-TTATTTAGTC
*
53005990 GTTTATTGTT
1 ATTTATTGTT
53006000 CATATTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 6 0.20
24 17 0.57
25 7 0.23
ACGTcount: A:0.19, C:0.05, G:0.08, T:0.68
Consensus pattern (24 bp):
ATTTATTGTTTTATTTATTTAGTC
Found at i:53006007 original size:24 final size:24
Alignment explanation
Indices: 53005956--53006009 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
53005946 CTTGTTTTAT
* * * *
53005956 TTATTTATTCATTTATTTTTTATG
1 TTATTTAGTCATTTATTGTTCATA
*
53005980 TTATTTAGTCGTTTATTGTTCATA
1 TTATTTAGTCATTTATTGTTCATA
53006004 TTATTT
1 TTATTT
53006010 GTTTATTACT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.06, G:0.07, T:0.67
Consensus pattern (24 bp):
TTATTTAGTCATTTATTGTTCATA
Found at i:53006015 original size:20 final size:19
Alignment explanation
Indices: 53005963--53006016 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
53005953 TATTTATTTA
53005963 TTCATTTATTT-TTTA-TG
1 TTCATTTATTTGTTTATTG
* *
53005980 TT-ATTTAGTCGTTTATTG
1 TTCATTTATTTGTTTATTG
53005998 TTCATATTATTTGTTTATT
1 TTCAT-TTATTTGTTTATT
53006017 ACTTCTACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
16 6 0.21
17 6 0.21
18 4 0.14
19 2 0.07
20 11 0.38
ACGTcount: A:0.19, C:0.06, G:0.09, T:0.67
Consensus pattern (19 bp):
TTCATTTATTTGTTTATTG
Found at i:53006122 original size:14 final size:16
Alignment explanation
Indices: 53006091--53006128 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
53006081 CTGTTACTTA
53006091 TTACTTTTTTATCTAT
1 TTACTTTTTTATCTAT
*
53006107 TTA-TTTTTTGTC-AT
1 TTACTTTTTTATCTAT
53006121 TTACTTTT
1 TTACTTTT
53006129 AAAAATTAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 5 0.25
15 12 0.60
16 3 0.15
ACGTcount: A:0.16, C:0.11, G:0.03, T:0.71
Consensus pattern (16 bp):
TTACTTTTTTATCTAT
Found at i:53006197 original size:15 final size:15
Alignment explanation
Indices: 53006179--53006219 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
53006169 CGTTATTGGT
*
53006179 ATTATTATTATTATC
1 ATTATTGTTATTATC
* *
53006194 ATTATTGTCATTTTC
1 ATTATTGTTATTATC
53006209 ATTATTGTTAT
1 ATTATTGTTAT
53006220 CATCCTATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.61
Consensus pattern (15 bp):
ATTATTGTTATTATC
Found at i:53009147 original size:21 final size:23
Alignment explanation
Indices: 53009121--53009163 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
53009111 ACATTAAATC
53009121 ATTTTAGT-T-TTTTTTTTTTAA
1 ATTTTAGTCTCTTTTTTTTTTAA
53009142 ATTTTAGTCGTCTTTTTTTTTT
1 ATTTTAGTC-TCTTTTTTTTTT
53009164 TTTTTTTGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
23 1 0.05
24 10 0.53
ACGTcount: A:0.14, C:0.05, G:0.07, T:0.74
Consensus pattern (23 bp):
ATTTTAGTCTCTTTTTTTTTTAA
Found at i:53010028 original size:18 final size:19
Alignment explanation
Indices: 53009988--53010029 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
53009978 GAGAATAGAT
53009988 TTTTAATTAAATAAATAAA
1 TTTTAATTAAATAAATAAA
*
53010007 -TTTAATTAATTAAA-AAA
1 TTTTAATTAAATAAATAAA
53010024 TTTTAA
1 TTTTAA
53010030 ACTCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TTTTAATTAAATAAATAAA
Found at i:53013638 original size:2 final size:2
Alignment explanation
Indices: 53013631--53013662 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
53013621 TCGACTAATA
*
53013631 AT AT AT AT GT 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
53013663 CATAATTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53014279 original size:227 final size:228
Alignment explanation
Indices: 53013861--53014401 Score: 831
Period size: 227 Copynumber: 2.4 Consensus size: 228
53013851 AAAATAAGCA
* * * *
53013861 TTAGCGGCGTTTTTGAGAATGCGCCGC-AAAAAACCTAAGCCCAACGACGT-CGTTTCCCAAGCT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGAC-TCCGTTTTCTAAGCT
* *
53013924 TTCGGGGATTTAGCGG-AGTTTCTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTT
65 TTCGGGGATTTAGCGGCA-TTTTTAAGAAAGCGCAGCTAATGCTCAGGGCTTTAGCGGCGTTTTT
* *
53013988 GGAAAAACGCCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTTTCGGGGATTTAGCG
129 GGAAAAACGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCAGGGATTTAGCG
*
53014053 ACGTTTATAGGAAAGCGCCGCTAATGCTCAGGGCT
194 ACGTTTATAAGAAAGCGCCGCTAATGCTCAGGGCT
* * *
53014088 TTAGCGGCATTTTCGGGAAAGCGCCGCAAAAAAACCTAAGCCCCACGACTCCGTTTTCTAAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACTCCGTTTTCTAAGCTT
53014153 TCGGGGATTTAGCGGCATTTTTAAGAAAGCGCAGCTAATGCTCAGGGCTTTAGCGGCGTTTTT-G
66 TCGGGGATTTAGCGGCATTTTTAAGAAAGCGCAGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGG
* * * *
53014217 AGAAAGCGCCGC-AAAAAACCTAAGGCCAACGACGCCGTTTTCTGAGCTTTTAGGGATTTAGCGG
131 A-AAAACGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCAGGGATTTAGCGA
*
53014281 CGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
195 CGTTTATAAGAAAGCGCCGCTAATGCTCAGGGCT
* * *
53014315 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAATGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACTCCGTTTTCTAAGCTT
*
53014380 TCGGGGATTTAGCGGCGTTTTT
66 TCGGGGATTTAGCGGCATTTTT
53014402 GGAAAAGCAC
Statistics
Matches: 286, Mismatches: 24, Indels: 8
0.90 0.08 0.03
Matches are distributed among these distances:
227 185 0.65
228 100 0.35
229 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (228 bp):
TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACTCCGTTTTCTAAGCTT
TCGGGGATTTAGCGGCATTTTTAAGAAAGCGCAGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGG
AAAAACGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCAGGGATTTAGCGAC
GTTTATAAGAAAGCGCCGCTAATGCTCAGGGCT
Found at i:53014417 original size:114 final size:114
Alignment explanation
Indices: 53013861--53014401 Score: 834
Period size: 114 Copynumber: 4.8 Consensus size: 114
53013851 AAAATAAGCA
* * * * **
53013861 TTAGCGGCGTTTTTGAGAATGCGCCGC-AAAAAACCTAAGCCCAACGACGTCGTTTCCCAAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
53013925 TCGGGGATTTAGCGGAGTTTCTAAGAAAGCGCCGCTAATGCTCAGGGCT
66 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* * *
53013974 TTAGCGGCGTTTTTGGAAAAACGCCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * *
53014039 TCGGGGATTTAGCGACGTTTATAGGAAAGCGCCGCTAATGCTCAGGGCT
66 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* * * * *
53014088 TTAGCGGCATTTTCGGGAAAGCGCCGCAAAAAAACCTAAGCCCCACGACTCCGTTTTCTAAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
53014153 TCGGGGATTTAGCGGCATTTTTAAGAAAGCGCAGCTAATGCTCAGGGCT
66 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* *
53014202 TTAGCGGCGTTTTTGAGAAAGCGCCGC-AAAAAACCTAAGGCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
**
53014266 TTAGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
66 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
*
53014315 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAATGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
53014380 TCGGGGATTTAGCGGCGTTTTT
66 TCGGGGATTTAGCGGCGTTTTT
53014402 GGAAAAGCAC
Statistics
Matches: 386, Mismatches: 40, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
113 127 0.33
114 259 0.67
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (114 bp):
TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
Found at i:53030875 original size:14 final size:15
Alignment explanation
Indices: 53030836--53030877 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
53030826 TGACACCAAG
53030836 ACATCGATGTTGCAAC
1 ACAT-GATGTTGCAAC
*
53030852 ACTATGATGTTGCTAC
1 AC-ATGATGTTGCAAC
53030868 AC-TGATGTTG
1 ACATGATGTTG
53030878 GACAAATTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 8 0.33
16 14 0.58
17 2 0.08
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (15 bp):
ACATGATGTTGCAAC
Found at i:53031986 original size:16 final size:16
Alignment explanation
Indices: 53031961--53032006 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
53031951 TAGTTAATCA
*
53031961 AATACATATTTTATCT
1 AATACTTATTTTATCT
* * *
53031977 AATATTTATTATATTT
1 AATACTTATTTTATCT
53031993 AATACTTATTTTAT
1 AATACTTATTTTAT
53032007 ATTAATTTTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (16 bp):
AATACTTATTTTATCT
Found at i:53034867 original size:34 final size:34
Alignment explanation
Indices: 53034824--53034894 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
53034814 GCGAAGTCGA
53034824 AATCTTTCCACCACCTGAAACAAAACCCATAACT
1 AATCTTTCCACCACCTGAAACAAAACCCATAACT
53034858 AATCTTTCCACCACCTGAAACAAAACCCATAACT
1 AATCTTTCCACCACCTGAAACAAAACCCATAACT
53034892 AAT
1 AAT
53034895 GAATTACTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.42, C:0.34, G:0.03, T:0.21
Consensus pattern (34 bp):
AATCTTTCCACCACCTGAAACAAAACCCATAACT
Found at i:53041665 original size:31 final size:31
Alignment explanation
Indices: 53041630--53041701 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
53041620 AGTGATAAAC
* *
53041630 AGTTCCATAACTTAAATAAAAACTTTTGAAT
1 AGTTCAATAACTTAAATAAAAACTTTCGAAT
* *
53041661 AGTTCAAAAACTTAAATGAAAACTTTCGAAT
1 AGTTCAATAACTTAAATAAAAACTTTCGAAT
*
53041692 AATTCAATAA
1 AGTTCAATAA
53041702 TTATATTATA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (31 bp):
AGTTCAATAACTTAAATAAAAACTTTCGAAT
Found at i:53045067 original size:14 final size:14
Alignment explanation
Indices: 53045021--53045061 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
53045011 AATTTACAGA
53045021 AAAATAAAATAAAA-
1 AAAAT-AAATAAAAC
53045035 AATAA-AAATAAAAC
1 AA-AATAAATAAAAC
53045049 AAAATAAATAAAA
1 AAAATAAATAAAA
53045062 TGAAATTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
13 10 0.42
14 12 0.50
15 2 0.08
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.15
Consensus pattern (14 bp):
AAAATAAATAAAAC
Found at i:53048898 original size:21 final size:21
Alignment explanation
Indices: 53048874--53048926 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
53048864 CATTGTTTCT
*
53048874 AATCTCACCGCTACAGTACCC
1 AATCTCACCGCTACAGTAACC
* *
53048895 AATCTCACCGCTATAGTAACT
1 AATCTCACCGCTACAGTAACC
53048916 AATCTCACCGC
1 AATCTCACCGC
53048927 CACCGCTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.38, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:53052071 original size:20 final size:18
Alignment explanation
Indices: 53052054--53052102 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
53052044 ATAGGAAATG
53052054 GAGAAAAGAAAAAGGAAA
1 GAGAAAAGAAAAAGGAAA
53052072 GA-AATAAGAGAAAAGGAAA
1 GAGAA-AAGA-AAAAGGAAA
53052091 -AGAAAAGAAAAA
1 GAGAAAAGAAAAA
53052103 AAGTGTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 6 0.21
18 11 0.39
19 11 0.39
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.02
Consensus pattern (18 bp):
GAGAAAAGAAAAAGGAAA
Found at i:53052087 original size:19 final size:19
Alignment explanation
Indices: 53052059--53052095 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
53052049 AAATGGAGAA
53052059 AAGAAAAAGG-AAAGAAAT
1 AAGAAAAAGGAAAAGAAAT
53052077 AAGAGAAAAGGAAAAGAAA
1 AAGA-AAAAGGAAAAGAAA
53052096 AGAAAAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 6 0.35
20 7 0.41
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.03
Consensus pattern (19 bp):
AAGAAAAAGGAAAAGAAAT
Found at i:53052145 original size:20 final size:20
Alignment explanation
Indices: 53052108--53052145 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
53052098 AAAAAAAGTG
*
53052108 TTTATAATATTATAGTTTCT
1 TTTATAATATAATAGTTTCT
53052128 TTTACTAATATAAT-GTTT
1 TTTA-TAATATAATAGTTT
53052146 TTATGCAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (20 bp):
TTTATAATATAATAGTTTCT
Found at i:53053752 original size:3 final size:3
Alignment explanation
Indices: 53053744--53053804 Score: 52
Period size: 3 Copynumber: 19.3 Consensus size: 3
53053734 ATATATAGGT
* * *
53053744 ATA ATA ATA TTA ATA TTTA AT- ATA ATA ATAA ATA ATA CTA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
53053790 ATA CAGTA ATA ATA A
1 ATA -A-TA ATA ATA A
53053805 CAATCTAACA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
2 2 0.04
3 36 0.77
4 7 0.15
5 2 0.04
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:53053787 original size:16 final size:15
Alignment explanation
Indices: 53053761--53053790 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
53053751 TATTAATATT
53053761 TAATATAATAATAAA
1 TAATATAATAATAAA
53053776 TAATACTAATAATAA
1 TAATA-TAATAATAA
53053791 TACAGTAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (15 bp):
TAATATAATAATAAA
Found at i:53055240 original size:41 final size:42
Alignment explanation
Indices: 53055187--53055351 Score: 151
Period size: 43 Copynumber: 4.0 Consensus size: 42
53055177 AACTTCAGGG
53055187 AGATAAGACTGGATG-TAA-CCTGCTCT-CTGCAACCTTAGAA
1 AGATAAGACTGGATGTTAATCC-GCTCTACTGCAACCTTAGAA
* **
53055227 AGATAAGATCTGGATGTTAATCCGCTCCACTGCAA-CTTCAGGG
1 AGATAAGA-CTGGATGTTAATCCGCTCTACTGCAACCTT-AGAA
*** ** * * *
53055270 AGATAAGACTGGAT-ACGATCTACTCTACTACAGCCTCAGAA
1 AGATAAGACTGGATGTTAATCCGCTCTACTGCAACCTTAGAA
*
53055311 AGATAAGATCTGGATGTTAATCCGCTCTACTGCAACTTTAG
1 AGATAAGA-CTGGATGTTAATCCGCTCTACTGCAACCTTAG
53055352 GTAGATAGGA
Statistics
Matches: 94, Mismatches: 23, Indels: 13
0.72 0.18 0.10
Matches are distributed among these distances:
40 8 0.09
41 28 0.30
42 24 0.26
43 34 0.36
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (42 bp):
AGATAAGACTGGATGTTAATCCGCTCTACTGCAACCTTAGAA
Found at i:53055343 original size:84 final size:83
Alignment explanation
Indices: 53055167--53055358 Score: 276
Period size: 84 Copynumber: 2.3 Consensus size: 83
53055157 TCTTTAGTCT
** * * *
53055167 GCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTAACCTGCTCTCTGCAACCTTAGAAAGATA
1 GCTCCACTGCAACTTCAGGGAGATAAGACTGGATACAACCTACTCTCTACAACCTCAGAAAGATA
53055232 AGATCTGGATGTTAATCC
66 AGATCTGGATGTTAATCC
* * *
53055250 GCTCCACTGCAACTTCAGGGAGATAAGACTGGATACGATCTACTCTACTACAGCCTCAGAAAGAT
1 GCTCCACTGCAACTTCAGGGAGATAAGACTGGATACAACCTACTCT-CTACAACCTCAGAAAGAT
53055315 AAGATCTGGATGTTAATCC
65 AAGATCTGGATGTTAATCC
* * *
53055334 GCTCTACTGCAACTTTAGGTAGATA
1 GCTCCACTGCAACTTCAGGGAGATA
53055359 GGATTAATTT
Statistics
Matches: 97, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
83 41 0.42
84 56 0.58
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.26
Consensus pattern (83 bp):
GCTCCACTGCAACTTCAGGGAGATAAGACTGGATACAACCTACTCTCTACAACCTCAGAAAGATA
AGATCTGGATGTTAATCC
Found at i:53055514 original size:129 final size:128
Alignment explanation
Indices: 53055250--53055539 Score: 429
Period size: 129 Copynumber: 2.3 Consensus size: 128
53055240 ATGTTAATCC
*
53055250 GCTCCACTGCAACTTCAGGGAGATAAGACTGGATACGATCTACTCTACTACAGCCTCAGAAAGAT
1 GCTCCACTGCAACTTCAGGGAGATAAGACTGGATACGATCTACTCTACTACAACCTCAGAAAGAT
* * * *
53055315 AAGATCTGGATGTTAATCCGCTCTACTGCAACTTTAGGTAGATAGGATTAATTTCTTCTGTCT
66 AAAATCTGGATGTTAATCCGCTCCACTACAACTTTAGGGAGATAGGATTAATTTCTTCTGTCT
* * *
53055378 GCTCCACTGTAACTTCAGGGAGATAAGACTGGATGCGATCTACTCTACTACAA-CTCCAGAGAGA
1 GCTCCACTGCAACTTCAGGGAGATAAGACTGGATACGATCTACTCTACTACAACCT-CAGAAAGA
* * * * *
53055442 TAAAATTTGTGGTTTTAATCCGCTCCACTACAACTTTAGGGAGATAGGATTGATTTTTTCTGTCT
65 TAAAATCTG-GATGTTAATCCGCTCCACTACAACTTTAGGGAGATAGGATTAATTTCTTCTGTCT
*
53055507 GCTCCACTGCAACTTCAGAGAGATAAGACTGGA
1 GCTCCACTGCAACTTCAGGGAGATAAGACTGGA
53055540 ATTTCACCGG
Statistics
Matches: 145, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
127 2 0.01
128 64 0.44
129 79 0.54
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (128 bp):
GCTCCACTGCAACTTCAGGGAGATAAGACTGGATACGATCTACTCTACTACAACCTCAGAAAGAT
AAAATCTGGATGTTAATCCGCTCCACTACAACTTTAGGGAGATAGGATTAATTTCTTCTGTCT
Found at i:53061481 original size:16 final size:16
Alignment explanation
Indices: 53061460--53061587 Score: 55
Period size: 16 Copynumber: 8.3 Consensus size: 16
53061450 AGGGTTTCCG
53061460 AATCACATTTCAATTC
1 AATCACATTTCAATTC
53061476 AATCAC-TTTC---TC
1 AATCACATTTCAATTC
53061488 -AT-AC-TTTCAATTC
1 AATCACATTTCAATTC
* *
53061501 AA--ATCATTCCAATTT
1 AATCA-CATTTCAATTC
**
53061516 AATCACCATTT-GGTTC
1 AATCA-CATTTCAATTC
*
53061532 AAT-ACATTTTTCGATTTC
1 AATCACA--TTTC-AATTC
53061550 AAATTCAC-TTTCAATTC
1 -AA-TCACATTTCAATTC
*
53061567 AATCACAATTCAATTC
1 AATCACATTTCAATTC
53061583 AATCA
1 AATCA
53061588 TGATACTCAC
Statistics
Matches: 85, Mismatches: 11, Indels: 32
0.66 0.09 0.25
Matches are distributed among these distances:
10 6 0.07
11 2 0.02
12 2 0.02
13 3 0.04
14 4 0.05
15 18 0.21
16 29 0.34
17 9 0.11
18 7 0.08
19 2 0.02
20 1 0.01
21 2 0.02
ACGTcount: A:0.34, C:0.23, G:0.02, T:0.40
Consensus pattern (16 bp):
AATCACATTTCAATTC
Found at i:53071191 original size:3 final size:3
Alignment explanation
Indices: 53071183--53071238 Score: 51
Period size: 3 Copynumber: 17.7 Consensus size: 3
53071173 ATATAGGTAC
* *
53071183 AAT AAT AAT ATTT AAT -AT AAT AAT AAAT AAT ACT AAT AAT AAT ACAGT
1 AAT AAT AAT A-AT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT A-A-T
53071231 AAT AAT AA
1 AAT AAT AA
53071239 CAATCTAACA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
2 2 0.05
3 33 0.75
4 7 0.16
5 2 0.05
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:53082180 original size:21 final size:21
Alignment explanation
Indices: 53082156--53082208 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
53082146 CATTATTTCT
* *
53082156 AATCTCACTGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
53082177 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
53082198 AATCTCACCGC
1 AATCTCACCGC
53082209 CACTATTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:53083925 original size:7 final size:7
Alignment explanation
Indices: 53083913--53083937 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
53083903 CGCCCTTCTT
53083913 TGCTCTC
1 TGCTCTC
53083920 TGCTCTC
1 TGCTCTC
53083927 TGCTCTC
1 TGCTCTC
53083934 TGCT
1 TGCT
53083938 GATTCTTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.40, G:0.16, T:0.44
Consensus pattern (7 bp):
TGCTCTC
Found at i:53085748 original size:16 final size:16
Alignment explanation
Indices: 53085727--53085780 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
53085717 TCAGGTTTGT
53085727 TCCCGAGCAGCTTAAG
1 TCCCGAGCAGCTTAAG
*
53085743 TCCC--G-AGCTTATCTG
1 TCCCGAGCAGCTTA--AG
53085758 TTCCCGAGCAGCTTAAG
1 -TCCCGAGCAGCTTAAG
53085775 TCCCGA
1 TCCCGA
53085781 AATTCTCGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
13 6 0.20
14 1 0.03
15 1 0.03
16 14 0.47
17 1 0.03
18 1 0.03
19 6 0.20
ACGTcount: A:0.20, C:0.33, G:0.22, T:0.24
Consensus pattern (16 bp):
TCCCGAGCAGCTTAAG
Found at i:53087226 original size:17 final size:17
Alignment explanation
Indices: 53087187--53087241 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
53087177 CTAATTACAA
*
53087187 ATATTTAATTTTT--AT
1 ATATTAAATTTTTAAAT
53087202 AT-TTAAATTTTTAAAT
1 ATATTAAATTTTTAAAT
53087218 ATATTAAATTTTATAAAT
1 ATATTAAATTTT-TAAAT
53087236 A-ATTAA
1 ATATTAA
53087242 TATTAATTAC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
14 9 0.26
15 2 0.06
16 4 0.11
17 14 0.40
18 6 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATATTAAATTTTTAAAT
Found at i:53089817 original size:58 final size:58
Alignment explanation
Indices: 53089746--53089865 Score: 179
Period size: 58 Copynumber: 2.1 Consensus size: 58
53089736 TGGAGGGGGG
* * * *
53089746 AAAAGTCATTATGCCT-AATATTTATATAGTTTTTGTAAGATCATGAAAGTATAAGGTT
1 AAAAGTCAATATG-CTGAATAATTACATAGTTTTTGTAACATCATGAAAGTATAAGGTT
*
53089804 AAAAGTCAATATGCTGAATAATTACATAGTTTTTGTAACATCATGAAAGTATAGGGTT
1 AAAAGTCAATATGCTGAATAATTACATAGTTTTTGTAACATCATGAAAGTATAAGGTT
53089862 AAAA
1 AAAA
53089866 ATTTCTTAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 2 0.04
58 54 0.96
ACGTcount: A:0.41, C:0.07, G:0.16, T:0.36
Consensus pattern (58 bp):
AAAAGTCAATATGCTGAATAATTACATAGTTTTTGTAACATCATGAAAGTATAAGGTT
Found at i:53092884 original size:16 final size:17
Alignment explanation
Indices: 53092852--53092891 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
53092842 AACATTTAAT
53092852 TAATTTTAAAAATTTTA
1 TAATTTTAAAAATTTTA
53092869 -AATTTTCAAAAA-TTTA
1 TAATTTT-AAAAATTTTA
53092885 TAATTTT
1 TAATTTT
53092892 TTTAAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
TAATTTTAAAAATTTTA
Found at i:53094121 original size:21 final size:21
Alignment explanation
Indices: 53094097--53094136 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
53094087 ATATTTATGG
*
53094097 TAATATAATTTATTTTTATAA
1 TAATATAATATATTTTTATAA
* *
53094118 TAATTTTATATATTTTTAT
1 TAATATAATATATTTTTAT
53094137 TTTCTTACCT
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TAATATAATATATTTTTATAA
Found at i:53105174 original size:49 final size:49
Alignment explanation
Indices: 53105117--53105214 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
53105107 CCTTAAATAG
53105117 ATAGTTTATCGCCCAATGATCTCTAATCTGTAGCACCTGATGAATTCAT
1 ATAGTTTATCGCCCAATGATCTCTAATCTGTAGCACCTGATGAATTCAT
*
53105166 ATAGTTTATCGCCCAATGATCTCTACTCTGTAGCACCTGATGAATTCAT
1 ATAGTTTATCGCCCAATGATCTCTAATCTGTAGCACCTGATGAATTCAT
53105215 CGAAGCAAAG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (49 bp):
ATAGTTTATCGCCCAATGATCTCTAATCTGTAGCACCTGATGAATTCAT
Found at i:53105597 original size:21 final size:21
Alignment explanation
Indices: 53105547--53105597 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
53105537 TTATAGAAGT
53105547 TTTAAAAAATTATAATTAAAA
1 TTTAAAAAATTATAATTAAAA
* * *
53105568 TATATAAAATTAGTAA-TGAAA
1 TTTAAAAAATTA-TAATTAAAA
53105589 TTTAAAAAA
1 TTTAAAAAA
53105598 GATATTTTGG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (21 bp):
TTTAAAAAATTATAATTAAAA
Found at i:53107710 original size:15 final size:15
Alignment explanation
Indices: 53107690--53107763 Score: 64
Period size: 15 Copynumber: 4.9 Consensus size: 15
53107680 TTATTGAAAT
53107690 TATTTAAATAAAAAA
1 TATTTAAATAAAAAA
*
53107705 TATTTAAATTAAAAA
1 TATTTAAATAAAAAA
* *
53107720 T-TATAAA-ATAAAA
1 TATTTAAATAAAAAA
53107733 TATTTCTAAACT-AAAAA
1 TA-TT-TAAA-TAAAAAA
53107750 TATTTAAATTAAAA
1 TATTTAAA-TAAAA
53107764 TTATAAATAT
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
13 5 0.11
14 5 0.11
15 21 0.46
16 9 0.20
17 6 0.13
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (15 bp):
TATTTAAATAAAAAA
Found at i:53107731 original size:30 final size:31
Alignment explanation
Indices: 53107686--53107763 Score: 81
Period size: 30 Copynumber: 2.6 Consensus size: 31
53107676 TTATTTATTG
* *
53107686 AAATTATTTAAATAAAAAATATT-TAAATTAA
1 AAATTATTAAAATAAAAAAT-TTCTAAACTAA
*
53107717 AAATTA-TAAAATAAAATATTTCTAAACTAA
1 AAATTATTAAAATAAAAAATTTCTAAACTAA
* *
53107747 AAA-TATTTAAATTAAAA
1 AAATTATTAAAATAAAAA
53107764 TTATAAATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
29 4 0.10
30 29 0.74
31 6 0.15
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (31 bp):
AAATTATTAAAATAAAAAATTTCTAAACTAA
Found at i:53107950 original size:17 final size:17
Alignment explanation
Indices: 53107925--53107984 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
53107915 AGACCCCAGC
*
53107925 TCTTTTTTTCTTTTTTT
1 TCTTCTTTTCTTTTTTT
53107942 TCTTCTTTTC---TTTT
1 TCTTCTTTTCTTTTTTT
53107956 TC-TC-TTTCTTTTTTT
1 TCTTCTTTTCTTTTTTT
53107971 T-TCTCTTTTCTTTT
1 TCT-TCTTTTCTTTT
53107985 CTGCTCGGGT
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
12 4 0.11
13 2 0.06
14 6 0.17
15 5 0.14
16 2 0.06
17 17 0.47
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (17 bp):
TCTTCTTTTCTTTTTTT
Found at i:53107961 original size:16 final size:16
Alignment explanation
Indices: 53107924--53107977 Score: 65
Period size: 17 Copynumber: 3.3 Consensus size: 16
53107914 CAGACCCCAG
*
53107924 CTCTTTTTTTCTTTTTT
1 CTCTTCTTTTC-TTTTT
*
53107941 TTCTTCTTTTCTTTTT
1 CTCTTCTTTTCTTTTT
53107957 CTCTTTCTTTT-TTTTT
1 CTC-TTCTTTTCTTTTT
53107973 CTCTT
1 CTCTT
53107978 TTCTTTTCTG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 2 0.06
16 15 0.45
17 16 0.48
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (16 bp):
CTCTTCTTTTCTTTTT
Found at i:53107985 original size:12 final size:11
Alignment explanation
Indices: 53107929--53107986 Score: 73
Period size: 12 Copynumber: 5.1 Consensus size: 11
53107919 CCCAGCTCTT
*
53107929 TTTTTCTTTTT
1 TTTTTCTTTTC
53107940 TTTCTTCTTTTC
1 TTT-TTCTTTTC
53107952 TTTTTCTCTTTC
1 TTTTTCT-TTTC
53107964 TTTTT-TTTTC
1 TTTTTCTTTTC
53107974 TCTTTTCTTTTC
1 T-TTTTCTTTTC
53107986 T
1 T
53107987 GCTCGGGTGG
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
10 5 0.12
11 12 0.29
12 25 0.60
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:53108270 original size:9 final size:9
Alignment explanation
Indices: 53108256--53108288 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
53108246 TTTAAAAAAA
53108256 TATTTTTTT
1 TATTTTTTT
53108265 TA-TTTTTT
1 TATTTTTTT
53108273 TATTTTTTT
1 TATTTTTTT
*
53108282 TCTTTTT
1 TATTTTT
53108289 CTTCTTTCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.09, C:0.03, G:0.00, T:0.88
Consensus pattern (9 bp):
TATTTTTTT
Found at i:53108276 original size:17 final size:17
Alignment explanation
Indices: 53108256--53108288 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
53108246 TTTAAAAAAA
53108256 TATTTTTTTTATTTTTT
1 TATTTTTTTTATTTTTT
*
53108273 TATTTTTTTTCTTTTT
1 TATTTTTTTTATTTTT
53108289 CTTCTTTCCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.03, G:0.00, T:0.88
Consensus pattern (17 bp):
TATTTTTTTTATTTTTT
Found at i:53108415 original size:18 final size:18
Alignment explanation
Indices: 53108389--53108437 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
53108379 CTCTTCCCTG
* *
53108389 TTTCCTCCTCTCTCTTCT
1 TTTCTTCCTCTCTCTTCC
*
53108407 TTTCTTCCTCTTTCTTCC
1 TTTCTTCCTCTCTCTTCC
* *
53108425 TCTCTTCTTCTCT
1 TTTCTTCCTCTCT
53108438 TTTTTTTTTG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTCTTCCTCTCTCTTCC
Found at i:53108422 original size:10 final size:10
Alignment explanation
Indices: 53108389--53108439 Score: 54
Period size: 10 Copynumber: 5.3 Consensus size: 10
53108379 CTCTTCCCTG
*
53108389 TTTCCTCCTC
1 TTTCTTCCTC
*
53108399 TCTCTT-CT-
1 TTTCTTCCTC
53108407 TTTCTTCCTC
1 TTTCTTCCTC
53108417 TTTCTTCCTC
1 TTTCTTCCTC
53108427 TCTTCTT-CTC
1 T-TTCTTCCTC
53108437 TTT
1 TTT
53108440 TTTTTTTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
8 5 0.14
9 6 0.17
10 19 0.54
11 5 0.14
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTCTTCCTC
Found at i:53108744 original size:59 final size:59
Alignment explanation
Indices: 53108666--53108822 Score: 187
Period size: 59 Copynumber: 2.6 Consensus size: 59
53108656 AGGTCCAAAG
* *
53108666 TGTAATTTCTAGAAAGTTTAAGGGTTAAAATG-AAATTTTAGGAAAGTT-TGGAGGTTAAAA-
1 TGTAATTT-TAAAAAGTTTAAGGGTCAAAATGTAAA-TTTAGGAAAGTTAT-GAGG-TAAAAT
* *
53108726 TGTAATTTTAAAAAGTTT-AGGGATGAAAATGTAAATTTAGGGAAGTTATGAGGTAAAAT
1 TGTAATTTTAAAAAGTTTAAGGG-TCAAAATGTAAATTTAGGAAAGTTATGAGGTAAAAT
* *
53108785 TGTAATTTTAAAAAGTTTAGGGGTCAAAATATAAATTT
1 TGTAATTTTAAAAAGTTTAAGGGTCAAAATGTAAATTT
53108823 CAAATTTTTT
Statistics
Matches: 86, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
58 9 0.10
59 62 0.72
60 15 0.17
ACGTcount: A:0.41, C:0.01, G:0.22, T:0.36
Consensus pattern (59 bp):
TGTAATTTTAAAAAGTTTAAGGGTCAAAATGTAAATTTAGGAAAGTTATGAGGTAAAAT
Found at i:53108754 original size:29 final size:28
Alignment explanation
Indices: 53108666--53108806 Score: 124
Period size: 30 Copynumber: 4.8 Consensus size: 28
53108656 AGGTCCAAAG
53108666 TGTAATTTCTAGAAAGTTTAAGGGTTAAAA
1 TGTAATTT-TAGAAAGTTT-AGGGTTAAAA
* *
53108696 TGAAATTTTAGGAAAGTTTGGAGGTTAAAA
1 TGTAATTTTA-GAAAGTTTAG-GGTTAAAA
* *
53108726 TGTAATTTTAAAAAGTTTAGGGATGAAAA
1 TGTAATTTTAGAAAGTTTAGGG-TTAAAA
* *
53108755 TGTAAATTTAGGGAAG-TTATGAGG-TAAAA
1 TGTAATTTTA-GAAAGTTTA-G-GGTTAAAA
*
53108784 TTGTAATTTTAAAAAGTTTAGGG
1 -TGTAATTTTAGAAAGTTTAGGG
53108807 GTCAAAATAT
Statistics
Matches: 90, Mismatches: 13, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
28 4 0.04
29 36 0.40
30 48 0.53
31 2 0.02
ACGTcount: A:0.40, C:0.01, G:0.23, T:0.35
Consensus pattern (28 bp):
TGTAATTTTAGAAAGTTTAGGGTTAAAA
Found at i:53108822 original size:30 final size:29
Alignment explanation
Indices: 53108669--53108822 Score: 102
Period size: 30 Copynumber: 5.2 Consensus size: 29
53108659 TCCAAAGTGT
* *
53108669 AATTTCTAGAAAGTTTAAGGGTTAAAATGA
1 AATTT-TAGAAAGTTTAGGGGTTAAAATTA
53108699 AATTTTAGGAAAGTTT-GGAGGTTAAAATGT-
1 AATTTTA-GAAAGTTTAGG-GGTTAAAAT-TA
* * *
53108729 AATTTTAAAAAGTTTAGGGATGAAAATGTA
1 AATTTTAGAAAGTTTAGGGGTTAAAAT-TA
* * *
53108759 AA-TTTAGGGAAG-TTATGAGG-TAAAATTGT
1 AATTTTA-GAAAGTTTA-GGGGTTAAAATT-A
* *
53108788 AATTTTAAAAAGTTTAGGGGTCAAAATATA
1 AATTTTAGAAAGTTTAGGGGTTAAAAT-TA
53108818 AATTT
1 AATTT
53108823 CAAATTTTTT
Statistics
Matches: 96, Mismatches: 16, Indels: 24
0.71 0.12 0.18
Matches are distributed among these distances:
28 1 0.01
29 39 0.41
30 55 0.57
31 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.21, T:0.35
Consensus pattern (29 bp):
AATTTTAGAAAGTTTAGGGGTTAAAATTA
Found at i:53109201 original size:77 final size:76
Alignment explanation
Indices: 53108994--53109466 Score: 528
Period size: 77 Copynumber: 6.1 Consensus size: 76
53108984 TTTTGTTTTT
* * * * *
53108994 ATTG-AAAATAGCTCGGCGTGTGATCCGAATGCACAACTTACCTCTCAG-ATTATGAGTTGATCT
1 ATTGAAAAATACCTCGGCGTGTGACCCGAA-GCTCAACTCACCTCTC-GCATTATGAGTTGATTT
*
53109057 TTGAAAAACAGAA
64 TTGAAAAAAAGAA
* *
53109070 ATTGAAAAACACCTCGGCGTGTGACCC-AAGACTCAACTCACCTCTCGGATTATGAGTTGATTTT
1 ATTGAAAAATACCTCGGCGTGTGACCCGAAG-CTCAACTCACCTCTCGCATTATGAGTTGATTTT
53109134 TGACAAAAGAAGAA
65 TGA-AAAA-AAGAA
* *
53109148 ATTGAAAAATACCTCGGCGTATG-CCCGAAGCTCAACTCACCTCTCGCATTATGAGTTTATTTTT
1 ATTGAAAAATACCTCGGCGTGTGACCCGAAGCTCAACTCACCTCTCGCATTATGAGTTGATTTTT
53109212 GAAAAAAAATAGAA
66 G--AAAAAA-AGAA
*
53109226 ATTGAAAAATACCTCGGCGTGTGACCCGAAGCTCAACTCACCTATCGCATTATGAGTTGATGTTT
1 ATTGAAAAATACCTCGGCGTGTGACCCGAAGCTCAACTCACCTCTCGCATTATGAGTTGA--TTT
* *
53109291 TTGAAAAACATAA
64 TTGAAAAAAAGAA
* * * * *
53109304 ATTG-AAAATACCTCAGCGAGCT-ACCTGAGGCTCAACTGACCTCTCGCATTATGAGTTGATTTT
1 ATTGAAAAATACCTCGGCGTG-TGACCCGAAGCTCAACTCACCTCTCGCATTATGAGTTGA--TT
*
53109367 TTTGAAAAAACATAA
63 TTTGAAAAAA-AGAA
*** * * *
53109382 ATTG-AAAATACCTCAATGTGCGACCCGAGGCTCAACTCACCTCTCGGATTATGAGTTGATTTTT
1 ATTGAAAAATACCTCGGCGTGTGACCCGAAGCTCAACTCACCTCTCGCATTATGAGTTGATTTTT
53109446 GAAAAAAGTAGAA
66 GAAAAAA--AGAA
53109459 ATTGAAAA
1 ATTGAAAA
53109467 TAATTCTTGA
Statistics
Matches: 347, Mismatches: 33, Indels: 32
0.84 0.08 0.08
Matches are distributed among these distances:
75 2 0.01
76 49 0.14
77 126 0.36
78 124 0.36
79 40 0.12
81 6 0.02
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (76 bp):
ATTGAAAAATACCTCGGCGTGTGACCCGAAGCTCAACTCACCTCTCGCATTATGAGTTGATTTTT
GAAAAAAAGAA
Found at i:53109278 original size:156 final size:154
Alignment explanation
Indices: 53108994--53109468 Score: 531
Period size: 156 Copynumber: 3.1 Consensus size: 154
53108984 TTTTGTTTTT
* * * * * * *
53108994 ATTGAAAATAGCTCGGCGTGTGATCCGAATGCACAACTTACCTCTCAG-ATTATGAGTTGATCTT
1 ATTGAAAATACCTCGGCGTATG-CCCGAA-GCTCAACTCACCTCTC-GCATTATGAGTTTATTTT
* *
53109058 TG---AAAAACAGAAATTGAAAAACACCTCGGCGTGTGACCC-AAGACTCAACTCACCTCTCGGA
63 TGAAAAAAAATAGAAATTGAAAAATACCTCGGCGTGTGACCCGAAG-CTCAACTCACCTCTCGGA
53109119 TTATGAGTTGATTTTTGACAAAAGAAGAA
127 TTATGAGTTGATTTTTGA-AAAAGAAGAA
53109148 ATTGAAAAATACCTCGGCGTATGCCCGAAGCTCAACTCACCTCTCGCATTATGAGTTTATTTTTG
1 ATTG-AAAATACCTCGGCGTATGCCCGAAGCTCAACTCACCTCTCGCATTATGAGTTTATTTTTG
* *
53109213 AAAAAAAATAGAAATTGAAAAATACCTCGGCGTGTGACCCGAAGCTCAACTCACCTATCGCATTA
65 AAAAAAAATAGAAATTGAAAAATACCTCGGCGTGTGACCCGAAGCTCAACTCACCTCTCGGATTA
* *
53109278 TGAGTTGATGTTTTTGAAAAA-CATAA
130 TGAGTTGA--TTTTTGAAAAAGAAGAA
* * * *
53109304 ATTGAAAATACCTCAGCG-A-GCTACCTGAGGCTCAACTGACCTCTCGCATTATGAGTTGATTTT
1 ATTGAAAATACCTCGGCGTATGC--CC-GAAGCTCAACTCACCTCTCGCATTATGAGTT--TATT
* *** * *
53109367 TTTGAAAAAACAT--AAATTG-AAAATACCTCAATGTGCGACCCGAGGCTCAACTCACCTCTCGG
61 TTTGAAAAAAAATAGAAATTGAAAAATACCTCGGCGTGTGACCCGAAGCTCAACTCACCTCTCGG
*
53109429 ATTATGAGTTGATTTTTGAAAAAAGTAGAA
126 ATTATGAGTTGATTTTTG-AAAAAGAAGAA
53109459 ATTGAAAATA
1 ATTGAAAATA
53109469 ATTCTTGAAA
Statistics
Matches: 279, Mismatches: 27, Indels: 29
0.83 0.08 0.09
Matches are distributed among these distances:
152 1 0.00
153 38 0.14
154 15 0.05
155 92 0.33
156 104 0.37
157 7 0.03
158 22 0.08
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.28
Consensus pattern (154 bp):
ATTGAAAATACCTCGGCGTATGCCCGAAGCTCAACTCACCTCTCGCATTATGAGTTTATTTTTGA
AAAAAAATAGAAATTGAAAAATACCTCGGCGTGTGACCCGAAGCTCAACTCACCTCTCGGATTAT
GAGTTGATTTTTGAAAAAGAAGAA
Found at i:53112282 original size:34 final size:34
Alignment explanation
Indices: 53112244--53112311 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
53112234 CTGCCATCGT
*
53112244 GACATTCTTCCTGAGAGTGCGGGTGATTCCATCA
1 GACATTCTTCCTGAGAATGCGGGTGATTCCATCA
53112278 GACATTCTTCCTGAGAATGCGGGTGATTCCATCA
1 GACATTCTTCCTGAGAATGCGGGTGATTCCATCA
53112312 TGTACTTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (34 bp):
GACATTCTTCCTGAGAATGCGGGTGATTCCATCA
Found at i:53115337 original size:39 final size:39
Alignment explanation
Indices: 53115288--53115442 Score: 168
Period size: 39 Copynumber: 3.8 Consensus size: 39
53115278 ACAGTAATCA
* *
53115288 GTAACGGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAATA
1 GTAACAGTAACAGTATTCGACACACAAAGTGCCGAA----T-A-G
* *
53115333 GTAACAGTAACAGTATTCGACATACAAAGTGCCGAATTG
1 GTAACAGTAACAGTATTCGACACACAAAGTGCCGAATAG
*
53115372 GTAACAGTAATAGTATTCGACACACAAAGTGCCGAATAG
1 GTAACAGTAACAGTATTCGACACACAAAGTGCCGAATAG
* * * *
53115411 GTAACAGTAATAGTAGTCGGCACA-TAAGTGCC
1 GTAACAGTAACAGTATTCGACACACAAAGTGCC
53115443 TGATTAGTAA
Statistics
Matches: 100, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
38 7 0.07
39 58 0.58
41 1 0.01
45 34 0.34
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.21
Consensus pattern (39 bp):
GTAACAGTAACAGTATTCGACACACAAAGTGCCGAATAG
Found at i:53115343 original size:45 final size:44
Alignment explanation
Indices: 53115281--53115425 Score: 174
Period size: 45 Copynumber: 3.3 Consensus size: 44
53115271 CAAGTAAACA
*
53115281 GTAATCAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATCG
1 GTAAT-AGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT-G
*
53115327 GTAATAGTAACAGTAACAGTATTCGACATACAAAGTGCCGAA--
1 GTAATAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATG
* *
53115369 -T--TGGTAACAGTAATAGTATTCGACACACAAAGTGCCGAATAG
1 GTAATAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT-G
* *
53115411 GTAACAGTAATAGTA
1 GTAATAGTAACAGTA
53115426 GTCGGCACAT
Statistics
Matches: 85, Mismatches: 8, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
39 35 0.41
41 1 0.01
43 1 0.01
45 43 0.51
46 5 0.06
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (44 bp):
GTAATAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATG
Found at i:53119197 original size:9 final size:9
Alignment explanation
Indices: 53119185--53119217 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
53119175 TTTCTTATAC
53119185 TTCTTTAGT
1 TTCTTTAGT
53119194 TTCTTTTA-T
1 TTC-TTTAGT
53119203 TTCTTTAGT
1 TTCTTTAGT
53119212 TTCTTT
1 TTCTTT
53119218 TATTTACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 4 0.18
9 14 0.64
10 4 0.18
ACGTcount: A:0.09, C:0.12, G:0.06, T:0.73
Consensus pattern (9 bp):
TTCTTTAGT
Found at i:53119237 original size:18 final size:18
Alignment explanation
Indices: 53119174--53119231 Score: 82
Period size: 18 Copynumber: 3.2 Consensus size: 18
53119164 CTGTTGTTTT
* *
53119174 GTTTCTTATACTTCTTTA
1 GTTTCTTTTATTTCTTTA
53119192 GTTTCTTTTATTTCTTTA
1 GTTTCTTTTATTTCTTTA
53119210 GTTTCTTTTATTTACTTT-
1 GTTTCTTTTATTT-CTTTA
53119228 GTTT
1 GTTT
53119232 TATTTACTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
18 33 0.89
19 4 0.11
ACGTcount: A:0.12, C:0.12, G:0.07, T:0.69
Consensus pattern (18 bp):
GTTTCTTTTATTTCTTTA
Found at i:53119765 original size:7 final size:7
Alignment explanation
Indices: 53119755--53119782 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
53119745 AAAATTTATT
53119755 TAAAAAA
1 TAAAAAA
53119762 TAAAAAA
1 TAAAAAA
53119769 TAAAAAA
1 TAAAAAA
53119776 TAAAAAA
1 TAAAAAA
53119783 AAAGTATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
TAAAAAA
Found at i:53131380 original size:50 final size:50
Alignment explanation
Indices: 53131289--53132012 Score: 520
Period size: 50 Copynumber: 14.5 Consensus size: 50
53131279 TCTATCTCTT
** * ** *
53131289 TGGCATTACAGTGGAATAGATTGAAGCTACAACAACAAATCTTACTTCCC
1 TGGCATTGTAGTGAAATAGATTGAAGCTACAACGGCGAATCTTACTTCCC
* ** * * **
53131339 TAGCGGTGTAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGTTTCCC
1 TGGCATTGTAGTGAAATAGATTGAAGCTACAACGGCGAATCTTACTTCCC
* * * * *
53131389 TGACATTGCAGTTAAATAGATTGAAGCTACAACAGTGAATCTTACTTCCC
1 TGGCATTGTAGTGAAATAGATTGAAGCTACAACGGCGAATCTTACTTCCC
** * * * **
53131439 TGGCGGTGTAGTGGAATAGATTGAAGCTACGACGGCGACTCTTGTTTCCC
1 TGGCATTGTAGTGAAATAGATTGAAGCTACAACGGCGAATCTTACTTCCC
* * * *
53131489 TGACATTGCAGTTAAATAGATTGAAGCTACAACGGTGAATCTTACTTCCC
1 TGGCATTGTAGTGAAATAGATTGAAGCTACAACGGCGAATCTTACTTCCC
** * * ** * * *
53131539 TGGCGGTATAGTGGAACCGATTGAAGCTACGACAGCGAATCTTATTTCCC
1 TGGCATTGTAGTGAAATAGATTGAAGCTACAACGGCGAATCTTACTTCCC
* * * * * * *
53131589 CGACATTGCAGTTAAATAGATTGAAGCTACAACAGTGAATCTTAGTTCCC
1 TGGCATTGTAGTGAAATAGATTGAAGCTACAACGGCGAATCTTACTTCCC
* * * * * * **
53131639 TTGCAATGTAATGGAATAGATTGAAGCTACGACAGCGAATCTTGTTTCCC
1 TGGCATTGTAGTGAAATAGATTGAAGCTACAACGGCGAATCTTACTTCCC
* * ** * *
53131689 CGACATTACAGTTAAATAGATTGAAGCTACAACGGTGAATCTTACTTCCC
1 TGGCATTGTAGTGAAATAGATTGAAGCTACAACGGCGAATCTTACTTCCC
** * * * * * * **
53131739 TGGCGGTGTAGTGGAACAAATTGAAGCTACGATGGCAAATCTTGTTTCCC
1 TGGCATTGTAGTGAAATAGATTGAAGCTACAACGGCGAATCTTACTTCCC
***** * * * *
53131789 CAATTTTGCAGTTAAATAGATTGAAGCTACAACGACGAATCTTAATTCCC
1 TGGCATTGTAGTGAAATAGATTGAAGCTACAACGGCGAATCTTACTTCCC
* * * * **
53131839 TGGCGA-TGTAGTGAAACAGATTGAAGCTACGATGGTGAATCTTGTTTCCC
1 TGGC-ATTGTAGTGAAATAGATTGAAGCTACAACGGCGAATCTTACTTCCC
* * * *
53131889 ---CAATTGTAGTTAAATAGATTAAAGCTACAACAGCGAATCTTACTTCTC
1 TGGC-ATTGTAGTGAAATAGATTGAAGCTACAACGGCGAATCTTACTTCCC
* * * * *
53131937 TGGCAGTGCAGTGGAATGGATTGAAGCTACGACGGCGAATCTTACTTCCC
1 TGGCATTGTAGTGAAATAGATTGAAGCTACAACGGCGAATCTTACTTCCC
* * * * *
53131987 CGACATTGCAGTTAAACAGATTGAAG
1 TGGCATTGTAGTGAAATAGATTGAAG
53132013 ATGGCGAATC
Statistics
Matches: 497, Mismatches: 172, Indels: 10
0.73 0.25 0.01
Matches are distributed among these distances:
47 2 0.00
48 34 0.07
50 460 0.93
51 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (50 bp):
TGGCATTGTAGTGAAATAGATTGAAGCTACAACGGCGAATCTTACTTCCC
Found at i:53131476 original size:100 final size:100
Alignment explanation
Indices: 53131303--53132012 Score: 976
Period size: 100 Copynumber: 7.1 Consensus size: 100
53131293 ATTACAGTGG
*** *
53131303 AATAGATTGAAGCTACAACAACAAATCTTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTA
1 AATAGATTGAAGCTACAACAGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* *
53131368 CAACGGCGAATCTTGTTTCCCTGACATTGCAGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
*
53131403 AATAGATTGAAGCTACAACAGTGAATCTTACTTCCCTGGCGGTGTAGTGGAATAGATTGAAGCTA
1 AATAGATTGAAGCTACAACAGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* *
53131468 CGACGGCGACTCTTGTTTCCCTGACATTGCAGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* * *
53131503 AATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTATAGTGGAACCGATTGAAGCTA
1 AATAGATTGAAGCTACAACAGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* *
53131568 CGACAGCGAATCTTATTTCCCCGACATTGCAGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* * ** * *
53131603 AATAGATTGAAGCTACAACAGTGAATCTTAGTTCCCTTGCAATGTAATGGAATAGATTGAAGCTA
1 AATAGATTGAAGCTACAACAGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* *
53131668 CGACAGCGAATCTTGTTTCCCCGACATTACAGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* *
53131703 AATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAAATTGAAGCTA
1 AATAGATTGAAGCTACAACAGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* * * **
53131768 CGATGGCAAATCTTGTTTCCCCAATTTTGCAGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* * * *
53131803 AATAGATTGAAGCTACAAC-GACGAATCTTAATTCCCTGGCGATGTAGTGAAACAGATTGAAGCT
1 AATAGATTGAAGCTACAACAG-TGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCT
* * *
53131867 ACGATGGTGAATCTTGTTTCCCC-A-ATTGTAGTTA
65 ACGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
* * * * * **
53131901 AATAGATTAAAGCTACAACAGCGAATCTTACTTCTCTGGCAGTGCAGTGGAATGGATTGAAGCTA
1 AATAGATTGAAGCTACAACAGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
**
53131966 CGACGGCGAATCTTACTTCCCCGACATTGCAGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
*
53132001 AACAGATTGAAG
1 AATAGATTGAAG
53132013 ATGGCGAATC
Statistics
Matches: 540, Mismatches: 66, Indels: 8
0.88 0.11 0.01
Matches are distributed among these distances:
98 80 0.15
99 4 0.01
100 456 0.84
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (100 bp):
AATAGATTGAAGCTACAACAGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
CGACGGCGAATCTTGTTTCCCCGACATTGCAGTTA
Found at i:53132042 original size:45 final size:45
Alignment explanation
Indices: 53131993--53132087 Score: 106
Period size: 44 Copynumber: 2.1 Consensus size: 45
53131983 TCCCCGACAT
** *
53131993 TGCAGTTA-AACAGATTGAAG-ATGGCGAATCTTATCTCCCTGAAGA
1 TGCAGTTAGAACAGATTGAAGCA--AAGAATCCTATCTCCCTGAAGA
* *
53132038 TGCAG-TAGAGCAGATTGAAGCAAAGAATCCTATCTCCCTGAAGT
1 TGCAGTTAGAACAGATTGAAGCAAAGAATCCTATCTCCCTGAAGA
53132082 TGCAGT
1 TGCAGT
53132088 GGAGCAAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
44 25 0.60
45 16 0.38
46 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (45 bp):
TGCAGTTAGAACAGATTGAAGCAAAGAATCCTATCTCCCTGAAGA
Found at i:53132078 original size:44 final size:44
Alignment explanation
Indices: 53132018--53132225 Score: 194
Period size: 44 Copynumber: 4.8 Consensus size: 44
53132008 TGAAGATGGC
*
53132018 GAATCTTATCTCCCTGAAGATGCAGTAGAGCAGATTGAAGCAAA
1 GAATCTTATCTCCCTGAAGATGCAGTGGAGCAGATTGAAGCAAA
* * * * * *
53132062 GAATCCTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAACCATA
1 GAATCTTATCTCCCTGAAGATGCAGTGGAGCAGATT-GAAGCAAA
* * * * *
53132107 G-ATCTTATCTCTCTGAAGTTGCA-TAGAGCAGA-T--CGCATA
1 GAATCTTATCTCCCTGAAGATGCAGTGGAGCAGATTGAAGCAAA
* * * *
53132146 CAGTCTTATCTCCCTGAAGATGCAATGGAGCAGATTGAAGCCAA
1 GAATCTTATCTCCCTGAAGATGCAGTGGAGCAGATTGAAGCAAA
* *
53132190 TAATCCTATCTCCCTGAA-ATTGCAGTGGAGCAGATT
1 GAATCTTATCTCCCTGAAGA-TGCAGTGGAGCAGATT
53132226 AAAACCATAG
Statistics
Matches: 132, Mismatches: 25, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
39 4 0.03
40 19 0.14
41 8 0.06
42 2 0.02
43 8 0.06
44 85 0.64
45 6 0.05
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (44 bp):
GAATCTTATCTCCCTGAAGATGCAGTGGAGCAGATTGAAGCAAA
Found at i:53132175 original size:84 final size:85
Alignment explanation
Indices: 53132019--53132224 Score: 211
Period size: 84 Copynumber: 2.4 Consensus size: 85
53132009 GAAGATGGCG
* * * * * * *
53132019 AATCTTATCTCCCTGAAGA-TGCAGTAGAGCAGATTGAAGCAAAGAATCCTATCTCCCTGAAGTT
1 AATCCTATCTCCCTGAA-ATTGCAGTAGAGCAGA-T--CGCATACAGTCTTATCTCCCTGAAGAT
*
53132083 GCAGTGGAGCAAATTAAAACC-AT
62 GCAATGGAGCAAATTAAAACCAAT
* * *
53132106 AGATCTTATCTCTCTGAAGTTGCA-TAGAGCAGATCGCATACAGTCTTATCTCCCTGAAGATGCA
1 A-ATCCTATCTCCCTGAAATTGCAGTAGAGCAGATCGCATACAGTCTTATCTCCCTGAAGATGCA
* * *
53132170 ATGGAGCAGATTGAAGCCAAT
65 ATGGAGCAAATTAAAACCAAT
*
53132191 AATCCTATCTCCCTGAAATTGCAGTGGAGCAGAT
1 AATCCTATCTCCCTGAAATTGCAGTAGAGCAGAT
53132225 TAAAACCATA
Statistics
Matches: 99, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
84 57 0.58
85 12 0.12
86 1 0.01
87 10 0.10
88 19 0.19
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (85 bp):
AATCCTATCTCCCTGAAATTGCAGTAGAGCAGATCGCATACAGTCTTATCTCCCTGAAGATGCAA
TGGAGCAAATTAAAACCAAT
Found at i:53132308 original size:128 final size:128
Alignment explanation
Indices: 53132021--53132308 Score: 441
Period size: 128 Copynumber: 2.2 Consensus size: 128
53132011 AGATGGCGAA
*
53132021 TCTTATCTCCCTGAAGATGCAGTAGAGCAGATTGAAGCAAAGAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGATGCAGTAGAGCAGATTGAAGCAAAGAATCCTATCTCCCTGAAATTGCA
* *
53132086 GTGGAGCAAATTAAAACCATAGATCTTATCTCTCTGAAGTTGCATAGAGCAGATCGCATACAG
66 GTGGAGCAAATTAAAACCATAGATCTTATCTCTCTGAAGTTCCAGAGAGCAGATCGCATACAG
* * * *
53132149 TCTTATCTCCCTGAAGATGCAATGGAGCAGATTGAAGCCAATAATCCTATCTCCCTGAAATTGCA
1 TCTTATCTCCCTGAAGATGCAGTAGAGCAGATTGAAGCAAAGAATCCTATCTCCCTGAAATTGCA
* * *
53132214 GTGGAGCAGATTAAAACCATAGATCTTATCTCTTTGAAGTTCCAGAGAGCAGATCGCATATAG
66 GTGGAGCAAATTAAAACCATAGATCTTATCTCTCTGAAGTTCCAGAGAGCAGATCGCATACAG
** * * *
53132277 TCTTATCTCTTTGAAGTTGCAGTTGAACAGAT
1 TCTTATCTCCCTGAAGATGCAGTAGAGCAGAT
53132309 CACATCCAGT
Statistics
Matches: 144, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
128 144 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (128 bp):
TCTTATCTCCCTGAAGATGCAGTAGAGCAGATTGAAGCAAAGAATCCTATCTCCCTGAAATTGCA
GTGGAGCAAATTAAAACCATAGATCTTATCTCTCTGAAGTTCCAGAGAGCAGATCGCATACAG
Found at i:53132324 original size:41 final size:40
Alignment explanation
Indices: 53132237--53132348 Score: 125
Period size: 41 Copynumber: 2.8 Consensus size: 40
53132227 AAACCATAGA
* * * * *
53132237 TCTTATCTCTTTGAAGTTCCAGAGAGCAGATCGCATATAG
1 TCTTATCTCTTTGAAGTTGCAGTGAACAGATCACATACAG
*
53132277 TCTTATCTCTTTGAAGTTGCAGTTGAACAGATCACATCCAG
1 TCTTATCTCTTTGAAGTTGCAG-TGAACAGATCACATACAG
* **
53132318 TTTTATCTCCCTGAAGTTGCAGTGAAGCAGA
1 TCTTATCTCTTTGAAGTTGCAGTGAA-CAGA
53132349 CAGAAGAAAC
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
40 25 0.41
41 36 0.59
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (40 bp):
TCTTATCTCTTTGAAGTTGCAGTGAACAGATCACATACAG
Found at i:53132360 original size:128 final size:128
Alignment explanation
Indices: 53132021--53132348 Score: 396
Period size: 128 Copynumber: 2.6 Consensus size: 128
53132011 AGATGGCGAA
* * * * * *
53132021 TCTTATCTCCCTGAAGATGCAGTAGAGCAGATTGAAGCAAAGAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGATGCAATGGAACAGATTCAAGCCAA-TATCCTATCTCCCTGAAGTTGCA
* *
53132086 GTGGAGCA-AATTAAAACCATAGATCTTATCTCTCTGAAGTTGCATAGAGCAGATCGCATACAG
65 GTGGAGCAGAATTAAAACCATAGATCTTATCTCTCTGAAGTTCCAGAGAGCAGATCGCATACAG
* * *
53132149 TCTTATCTCCCTGAAGATGCAATGGAGCAGATTGAAGCCAATAATCCTATCTCCCTGAAATTGCA
1 TCTTATCTCCCTGAAGATGCAATGGAACAGATTCAAGCCAAT-ATCCTATCTCCCTGAAGTTGCA
* *
53132214 GTGGAGCAG-ATTAAAACCATAGATCTTATCTCTTTGAAGTTCCAGAGAGCAGATCGCATATAG
65 GTGGAGCAGAATTAAAACCATAGATCTTATCTCTCTGAAGTTCCAGAGAGCAGATCGCATACAG
** * * * * * *
53132277 TCTTATCTCTTTGAAGTTGCAGTTGAACAGA-TCACATCCAGT-T-TTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGATGCAATGGAACAGATTCA-AGCCAATATCCTATCTCCCTGAAGTTGCA
*
53132339 GTGAAGCAGA
65 GTGGAGCAGA
53132349 CAGAAGAAAC
Statistics
Matches: 175, Mismatches: 21, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
125 25 0.14
126 1 0.01
127 2 0.01
128 147 0.84
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (128 bp):
TCTTATCTCCCTGAAGATGCAATGGAACAGATTCAAGCCAATATCCTATCTCCCTGAAGTTGCAG
TGGAGCAGAATTAAAACCATAGATCTTATCTCTCTGAAGTTCCAGAGAGCAGATCGCATACAG
Found at i:53133229 original size:16 final size:15
Alignment explanation
Indices: 53133204--53133233 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
53133194 AAAAGAATAA
53133204 AAAGAAAGAGATTAG
1 AAAGAAAGAGATTAG
53133219 AAAGCAAAGAGATTA
1 AAAG-AAAGAGATTA
53133234 CCTCGTGGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.60, C:0.03, G:0.23, T:0.13
Consensus pattern (15 bp):
AAAGAAAGAGATTAG
Found at i:53133833 original size:3 final size:3
Alignment explanation
Indices: 53133825--53133881 Score: 71
Period size: 3 Copynumber: 18.7 Consensus size: 3
53133815 ATTAATTGGT
*
53133825 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TGTCA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-T-A TTA TTA TTA
*
53133871 TTA GTA TTA TT
1 TTA TTA TTA TT
53133882 TTTTTTATTC
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
2 1 0.02
3 45 0.96
4 1 0.02
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:53140551 original size:29 final size:28
Alignment explanation
Indices: 53140510--53140564 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
53140500 AATATTAAGT
*
53140510 TAAACAATAATAACAATA-AAGAAAATAGA
1 TAAAAAATAATAA-AATATAA-AAAATAGA
*
53140539 TAAAAAATTATAAAATATAAAAAATA
1 TAAAAAATAATAAAATATAAAAAATA
53140565 TATATATGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 10 0.43
29 13 0.57
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.22
Consensus pattern (28 bp):
TAAAAAATAATAAAATATAAAAAATAGA
Found at i:53140567 original size:2 final size:2
Alignment explanation
Indices: 53140562--53140602 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
53140552 AATATAAAAA
* *
53140562 AT AT AT AT AT GT AT GT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
53140603 ACAAAGTTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:53142347 original size:3 final size:3
Alignment explanation
Indices: 53142296--53142327 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
53142286 TAATTGGTTT
53142296 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
53142328 TGTCACTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:53146618 original size:46 final size:46
Alignment explanation
Indices: 53146550--53146654 Score: 176
Period size: 46 Copynumber: 2.3 Consensus size: 46
53146540 GTTCAGATTC
* *
53146550 AAAAAAAAATCAAGATCAAAAAATCAAAAAAATTAGGATCAAAAAT
1 AAAAAAAAATCAAGATCAAAAAATCAAAAAAATCAAGATCAAAAAT
53146596 AAAAAAAAATTCAAGATCAAAAAAT-AAAAAAATCAAGATCAAAAAT
1 AAAAAAAAA-TCAAGATCAAAAAATCAAAAAAATCAAGATCAAAAAT
53146642 AAAAAAAAATCAA
1 AAAAAAAAATCAA
53146655 AGCCAAAATC
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
45 4 0.07
46 37 0.66
47 15 0.27
ACGTcount: A:0.72, C:0.09, G:0.05, T:0.14
Consensus pattern (46 bp):
AAAAAAAAATCAAGATCAAAAAATCAAAAAAATCAAGATCAAAAAT
Found at i:53146668 original size:23 final size:23
Alignment explanation
Indices: 53146550--53146674 Score: 112
Period size: 23 Copynumber: 5.4 Consensus size: 23
53146540 GTTCAGATTC
*
53146550 AAAAAAAAATCAAGATCAAAAA-
1 AAAAAAAAATCAAGAGCAAAAAT
* * * *
53146572 ATCAAAAAAATTAGGATCAAAAAT
1 A-AAAAAAAATCAAGAGCAAAAAT
*
53146596 AAAAAAAAATTCAAGATCAAAAA-
1 AAAAAAAAA-TCAAGAGCAAAAAT
* *
53146619 ATAAAAAAATCAAGATCAAAAAT
1 AAAAAAAAATCAAGAGCAAAAAT
*
53146642 AAAAAAAAATCAA-AGCCAAAAT
1 AAAAAAAAATCAAGAGCAAAAAT
53146664 CAAAAATAAAA
1 -AAAAA-AAAA
53146675 AAAAATGAAA
Statistics
Matches: 87, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
22 21 0.24
23 50 0.57
24 16 0.18
ACGTcount: A:0.72, C:0.10, G:0.05, T:0.14
Consensus pattern (23 bp):
AAAAAAAAATCAAGAGCAAAAAT
Found at i:53146686 original size:23 final size:23
Alignment explanation
Indices: 53146550--53146654 Score: 142
Period size: 23 Copynumber: 4.6 Consensus size: 23
53146540 GTTCAGATTC
53146550 AAAAAAAAATCAAGATCAAAAA-
1 AAAAAAAAATCAAGATCAAAAAT
* * *
53146572 ATCAAAAAAATTAGGATCAAAAAT
1 A-AAAAAAAATCAAGATCAAAAAT
53146596 AAAAAAAAATTCAAGATCAAAAA-
1 AAAAAAAAA-TCAAGATCAAAAAT
*
53146619 ATAAAAAAATCAAGATCAAAAAT
1 AAAAAAAAATCAAGATCAAAAAT
53146642 AAAAAAAAATCAA
1 AAAAAAAAATCAA
53146655 AGCCAAAATC
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
22 14 0.20
23 45 0.63
24 12 0.17
ACGTcount: A:0.72, C:0.09, G:0.05, T:0.14
Consensus pattern (23 bp):
AAAAAAAAATCAAGATCAAAAAT
Found at i:53149054 original size:88 final size:88
Alignment explanation
Indices: 53148952--53149538 Score: 609
Period size: 88 Copynumber: 6.6 Consensus size: 88
53148942 CGGAGCAGAC
* * * * *
53148952 TGAAGATAGTAGATCTTGCCTTCCTGTACTGGCAGCGAAGCAGATCAAAAACACCAGCCTTATCT
1 TGAAAATAGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCAAAGACACCAGCCTTATCT
53149017 CCCTGAGCAGCAGTGGAGTAGGT
66 CCCTGAGCAGCAGTGGAGTAGGT
* * * * *
53149040 TGAAAATAGCAGATCTTGTATTCCTGTACTGGCAGTAAAGCAGATCAAAGATAGCAAGTCTTATC
1 TGAAAATAGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCAAAGACA-CCAGCCTTATC
** * **
53149105 TCCCTGAGTTGCAGCGGAGTAGAC
65 TCCCTGAGCAGCAGTGGAGTAGGT
* * * * * * *
53149129 TGAAGATAGCATATCTTGTCTTTCTATTA-TAGCAGTGAAGTAGATTAAAGACACCAGCCTTATC
1 TGAAAATAGCAGATCTTGTCTTCCT-GTACTGGCAGTGAAGCAGATCAAAGACACCAGCCTTATC
* * *
53149193 TCCCTGAGCAGAAGTAGAGTGGGT
65 TCCCTGAGCAGCAGTGGAGTAGGT
* * * **
53149217 TGAAAATAGCAGATCTTGTCTTCCTGTACTGGCAATGAAGCAGATCGAAGATAGCCAGTATTATC
1 TGAAAATAGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCAAAGACA-CCAGCCTTATC
* ** * ** * **
53149282 TCTCTGAGTTGTAGCAGAGCAGAC
65 TCCCTGAGCAGCAGTGGAGTAGGT
* * * *
53149306 TGAAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCAAAGACACTAGCCTTATCT
1 TGAAAATAGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCAAAGACACCAGCCTTATCT
* *
53149371 TCCTGTGCAGCAGTGGAGTAGGT
66 CCCTGAGCAGCAGTGGAGTAGGT
* * ** *
53149394 TGAAAATAGTAGATCTTGTCTTCCTGTATTGGCAGCAAAGCAGATCGAAGACACCAGCCTTATCT
1 TGAAAATAGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCAAAGACACCAGCCTTATCT
* *
53149459 CCCTAAGCAGTAGTGGAGTAGGT
66 CCCTGAGCAGCAGTGGAGTAGGT
** * * * * *
53149482 AAAAAATAACAGATCTTGCCATCTTGTACTGGCAGTGAAGCAGATCGAAGACACCAG
1 TGAAAATAGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCAAAGACACCAG
53149539 TTTTATCGTA
Statistics
Matches: 398, Mismatches: 97, Indels: 8
0.79 0.19 0.02
Matches are distributed among these distances:
87 2 0.01
88 255 0.64
89 139 0.35
90 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (88 bp):
TGAAAATAGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCAAAGACACCAGCCTTATCT
CCCTGAGCAGCAGTGGAGTAGGT
Found at i:53149220 original size:177 final size:177
Alignment explanation
Indices: 53148909--53149462 Score: 770
Period size: 177 Copynumber: 3.1 Consensus size: 177
53148899 GAAGTGTTTT
* * *
53148909 AAAGACAGCAAGTCTTATCTCCCTGGGTTGCAGCGGAGCAGACTGAAGATAGTAGATCTTGCCTT
1 AAAGACAGCAAGTCTTATCTCCCTGAGTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTGTCTT
* *
53148974 CCTGTACTGGCAGCGAAGCAGATCAAAAACACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGG
66 CCTGTACTGGCAGCGAAGTAGATCAAAGACACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGG
*
53149039 TTGAAAATAGCAGATCTTGTATTCCTGTACTGGCAGTAAAGCAGATC
131 TTGAAAATAGCAGATCTTGTCTTCCTGTACTGGCAGTAAAGCAGATC
* * *
53149086 AAAGATAGCAAGTCTTATCTCCCTGAGTTGCAGCGGAGTAGACTGAAGATAGCATATCTTGTCTT
1 AAAGACAGCAAGTCTTATCTCCCTGAGTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTGTCTT
* * * * * * * *
53149151 TCTATTA-TAGCAGTGAAGTAGATTAAAGACACCAGCCTTATCTCCCTGAGCAGAAGTAGAGTGG
66 CCT-GTACTGGCAGCGAAGTAGATCAAAGACACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAG
* *
53149215 GTTGAAAATAGCAGATCTTGTCTTCCTGTACTGGCAATGAAGCAGATC
130 GTTGAAAATAGCAGATCTTGTCTTCCTGTACTGGCAGTAAAGCAGATC
* * * * * * *
53149263 GAAGATAGCCAGTATTATCTCTCTGAGTTGTAGCAGAGCAGACTGAAGATAGCAGATCTTGTCTT
1 AAAGACAGCAAGTCTTATCTCCCTGAGTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTGTCTT
* * *
53149328 CCTGTACTGGCAGCGAAGTAGATCAAAGACACTAGCCTTATCTTCCTGTGCAGCAGTGGAGTAGG
66 CCTGTACTGGCAGCGAAGTAGATCAAAGACACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGG
* * *
53149393 TTGAAAATAGTAGATCTTGTCTTCCTGTATTGGCAGCAAAGCAGATC
131 TTGAAAATAGCAGATCTTGTCTTCCTGTACTGGCAGTAAAGCAGATC
* * *
53149440 GAAGACA-CCAGCCTTATCTCCCT
1 AAAGACAGCAAGTCTTATCTCCCT
53149463 AAGCAGTAGT
Statistics
Matches: 328, Mismatches: 47, Indels: 5
0.86 0.12 0.01
Matches are distributed among these distances:
176 15 0.05
177 311 0.95
178 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (177 bp):
AAAGACAGCAAGTCTTATCTCCCTGAGTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTGTCTT
CCTGTACTGGCAGCGAAGTAGATCAAAGACACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGG
TTGAAAATAGCAGATCTTGTCTTCCTGTACTGGCAGTAAAGCAGATC
Found at i:53149391 original size:265 final size:265
Alignment explanation
Indices: 53148962--53149545 Score: 641
Period size: 265 Copynumber: 2.2 Consensus size: 265
53148952 TGAAGATAGT
* ** * * ** * **
53148962 AGATCTTGCCTTCCTGTACTGGCAGCGAAGCAGATCAAAAACACCAGCCTTATCTCCCTGAGCAG
1 AGATCTTGCCATCCTGTACTGGCAATGAAGCAGATCGAAGACACCAGTATTATCTCTCTGAGTTG
* ** * ** * *
53149027 CAGTGGAGTAGGTTGAAAATAGCAGATCTTGTATTCCTGTACTGGCAGTAAAGCAGATCAAAGAT
66 TAGCAGAGCAGACTGAAAATAGCAGATCTTGTATTCCTGTACTGGCAGCAAAGCAGATCAAAGAC
* ** * * * *
53149092 AGCAAGTCTTATCTCCCTGAGTTGCAGCGGAGTAGACTGAAGATAGCATATCTTGTCTTTCTAT-
131 AGCAAGCCTTATCTCCCTGAGCAGCAGCGGAGTAGACTGAAAATAGCAGATCTTGTCTTCCTGTA
** * * * * **
53149156 TATAGCAGTGAAGTAGATTAAAGACACCAGCCTTATCTCCCTGAGCAGAAGTAGAGTGGGTTGAA
196 T-TAGCAGCAAAGCAGATCAAAGACACCAGCCTTATCTCCCTAAGCAGAAGTAGAGTAGGTAAAA
*
53149221 AATAGC
260 AATAAC
* * *
53149227 AGATCTTGTCTTCCTGTACTGGCAATGAAGCAGATCGAAGATAGCCAGTATTATCTCTCTGAGTT
1 AGATCTTGCCATCCTGTACTGGCAATGAAGCAGATCGAAGACA-CCAGTATTATCTCTCTGAGTT
* * * *
53149292 GTAGCAGAGCAGACTGAAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCAAAGA
65 GTAGCAGAGCAGACTGAAAATAGCAGATCTTGTATTCCTGTACTGGCAGCAAAGCAGATCAAAGA
* * * * ** *
53149357 CA-CTAGCCTTATCTTCCTGTGCAGCAGTGGAGTAGGTTGAAAATAGTAGATCTTGTCTTCCTGT
130 CAGCAAGCCTTATCTCCCTGAGCAGCAGCGGAGTAGACTGAAAATAGCAGATCTTGTCTTCCTGT
* * * *
53149421 ATTGGCAGCAAAGCAGATCGAAGACACCAGCCTTATCTCCCTAAGCAGTAGTGGAGTAGGTAAAA
195 ATTAGCAGCAAAGCAGATCAAAGACACCAGCCTTATCTCCCTAAGCAGAAGTAGAGTAGGTAAAA
53149486 AATAAC
260 AATAAC
* * *
53149492 AGATCTTGCCATCTTGTACTGGCAGTGAAGCAGATCGAAGACACCAGTTTTATC
1 AGATCTTGCCATCCTGTACTGGCAATGAAGCAGATCGAAGACACCAGTATTATC
53149546 GTATTGAAGT
Statistics
Matches: 261, Mismatches: 56, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
264 10 0.04
265 179 0.69
266 72 0.28
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (265 bp):
AGATCTTGCCATCCTGTACTGGCAATGAAGCAGATCGAAGACACCAGTATTATCTCTCTGAGTTG
TAGCAGAGCAGACTGAAAATAGCAGATCTTGTATTCCTGTACTGGCAGCAAAGCAGATCAAAGAC
AGCAAGCCTTATCTCCCTGAGCAGCAGCGGAGTAGACTGAAAATAGCAGATCTTGTCTTCCTGTA
TTAGCAGCAAAGCAGATCAAAGACACCAGCCTTATCTCCCTAAGCAGAAGTAGAGTAGGTAAAAA
ATAAC
Found at i:53149790 original size:50 final size:49
Alignment explanation
Indices: 53149727--53150441 Score: 482
Period size: 50 Copynumber: 14.4 Consensus size: 49
53149717 TTTGGCATTA
* ** *
53149727 CAGTGGAATAGATTGAAGCTACAACGGCAAATCTTACTTCCCTAGCGGTG
1 CAGTGAAATAGATTGAAGCTACAACGGTGAATCTTACTTCCCT-GCGTTG
* * * ** * *
53149777 TAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGTTTCGCTGACATTG
1 CAGTGAAATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTG-CGTTG
* *
53149827 CAGTTAAATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTG
1 CAGTGAAATAGATTGAAGCTACAACGGTGAATCTTACTTCCCT-GCGTTG
* * * * * ** * *
53149877 TAATGGAATAGATTGAAGCTACGACGGTGACTCTTGTTTCTCTGACATTG
1 CAGTGAAATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTG-CGTTG
* * *
53149927 CAGTTAAATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGATA
1 CAGTGAAATAGATTGAAGCTACAACGGTGAATCTTACTTCCCT-GCGTTG
* * ** * * * * * *
53149977 TAGTGGAACCGATTGAAGCTACGACAGCGAATCTTATTTCCCCGACATTG
1 CAGTGAAATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTG-CGTTG
* * * *
53150027 CAGTTAAATAGATTGAAGCTACAACAGTGAATCTTAGTTCCCTTGCGGTG
1 CAGTGAAATAGATTGAAGCTACAACGGTGAATCTTACTTCCC-TGCGTTG
* * * * * * ** * * *
53150077 TAATGGAATAGATTGAAGCTACGACAGCGAATCTTGTTTCCCCGACATTA
1 CAGTGAAATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTG-CGTTG
* * *
53150127 CAGTTAAATAGATTGAAGCTACAACGATGAATCTTACTTCCCTGGCGGTG
1 CAGTGAAATAGATTGAAGCTACAACGGTGAATCTTACTTCCCT-GCGTTG
* * * * * * ** ****
53150177 TAGTGGAACAAATTGAAGCTACGACGGCGAATCTTGTTTCCCCAAAATTG
1 CAGTGAAATAGATTGAAGCTACAACGGTGAATCTTACTT-CCCTGCGTTG
* *** * *
53150227 CAGTTAAATAGATTGAAGCTACAACAACGAATCTTAATTCCCTGGCGATG
1 CAGTGAAATAGATTGAAGCTACAACGGTGAATCTTACTTCCCT-GCGTTG
* * * * * *
53150277 TAGTGAAACAGATTGAAGCTACGATGGTGAATCTT-GTTTCCT-CGATTG
1 CAGTGAAATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGCG-TTG
* * * *
53150325 CAGTTAAATAGATTAAAGCTACAACAGCGAATCTTACTTCCCTGCAG-TG
1 CAGTGAAATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGC-GTTG
* ** * * *
53150374 CAGTGGAACGGATTGAAGCTACGACGGTGAATCTTACTTCCCCGACATTG
1 CAGTGAAATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTG-CGTTG
* *
53150424 CAGTTAAACAGATTGAAG
1 CAGTGAAATAGATTGAAG
53150442 ATGGCGAATC
Statistics
Matches: 494, Mismatches: 155, Indels: 32
0.73 0.23 0.05
Matches are distributed among these distances:
47 2 0.00
48 29 0.06
49 54 0.11
50 401 0.81
51 8 0.02
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (49 bp):
CAGTGAAATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGCGTTG
Found at i:53149860 original size:100 final size:100
Alignment explanation
Indices: 53149733--53150441 Score: 974
Period size: 100 Copynumber: 7.1 Consensus size: 100
53149723 ATTACAGTGG
** *
53149733 AATAGATTGAAGCTACAACGGCAAATCTTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTA
1 AATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* * *
53149798 CAACGGTGAATCTTGTTTCGCTGACATTGCAGTTA
66 CGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
* *
53149833 AATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGTAATGGAATAGATTGAAGCTA
1 AATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* * *
53149898 CGACGGTGACTCTTGTTTCTCTGACATTGCAGTTA
66 CGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
* * *
53149933 AATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGATATAGTGGAACCGATTGAAGCTA
1 AATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* * *
53149998 CGACAGCGAATCTTATTTCCCCGACATTGCAGTTA
66 CGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
* * * * *
53150033 AATAGATTGAAGCTACAACAGTGAATCTTAGTTCCCTTGCGGTGTAATGGAATAGATTGAAGCTA
1 AATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* * *
53150098 CGACAGCGAATCTTGTTTCCCCGACATTACAGTTA
66 CGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
* *
53150133 AATAGATTGAAGCTACAACGATGAATCTTACTTCCCTGGCGGTGTAGTGGAACAAATTGAAGCTA
1 AATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* * *
53150198 CGACGGCGAATCTTGTTTCCCCAAAATTGCAGTTA
66 CGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
*** * * *
53150233 AATAGATTGAAGCTACAACAACGAATCTTAATTCCCTGGCGATGTAGTGAAACAGATTGAAGCTA
1 AATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* *
53150298 CGATGGTGAATCTTGTTTCCTCG--ATTGCAGTTA
66 CGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
* * * * * *
53150331 AATAGATTAAAGCTACAACAGCGAATCTTACTTCCCT-GCAGTGCAGTGGAACGGATTGAAGCTA
1 AATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
**
53150395 CGACGGTGAATCTTACTTCCCCGACATTGCAGTTA
66 CGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
*
53150430 AACAGATTGAAG
1 AATAGATTGAAG
53150442 ATGGCGAATC
Statistics
Matches: 543, Mismatches: 64, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
97 41 0.08
98 44 0.08
99 20 0.04
100 438 0.81
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (100 bp):
AATAGATTGAAGCTACAACGGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
CGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
Found at i:53150508 original size:44 final size:44
Alignment explanation
Indices: 53150448--53150636 Score: 154
Period size: 44 Copynumber: 4.4 Consensus size: 44
53150438 GAAGATGGCG
53150448 AATCCTATCTCCCTGAAGATGCAGCAGAGCAGATTGAAGCAAAT
1 AATCCTATCTCCCTGAAGATGCAGCAGAGCAGATTGAAGCAAAT
* * ** * * *
53150492 ACTCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAC-CAT
1 AATCCTATCTCCCTGAAGATGCAGCAGAGCAGATTGAAGCAAAT
* * * * * * * *
53150535 AGATCTTATCTCTCTGAAGTTGCA-TAGAACAGA-T--CGCATAC
1 A-ATCCTATCTCCCTGAAGATGCAGCAGAGCAGATTGAAGCAAAT
* * * * *
53150576 AGTCTTATCTCCTTGAAGATGCAGCGGAGCAGATTGAAGCCAAT
1 AATCCTATCTCCCTGAAGATGCAGCAGAGCAGATTGAAGCAAAT
53150620 AATCCTATCTCCCTGAA
1 AATCCTATCTCCCTGAA
53150637 ATTGTAACGG
Statistics
Matches: 109, Mismatches: 30, Indels: 12
0.72 0.20 0.08
Matches are distributed among these distances:
40 19 0.17
41 8 0.07
42 2 0.02
43 10 0.09
44 70 0.64
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (44 bp):
AATCCTATCTCCCTGAAGATGCAGCAGAGCAGATTGAAGCAAAT
Found at i:53150681 original size:128 final size:128
Alignment explanation
Indices: 53150453--53150701 Score: 390
Period size: 128 Copynumber: 1.9 Consensus size: 128
53150443 TGGCGAATCC
* * **
53150453 TATCTCCCTGAAGATGCAGCAGAGCAGATTGAAGCAAATACTCCTATCTCCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGATGCAGCAGAGCAGATTGAAGCAAATAATCCTATCTCCCTGAAATTGCAACG
*
53150518 GAGCAGATTAAAACCATAGATCTTATCTCTCTGAAGTTGCATAGAACAGATCGCATACAGTCT
66 GAGCAGATTAAAACCATAGATCTTATCTCTCTGAAGTTGCAGAGAACAGATCGCATACAGTCT
* * * *
53150581 TATCTCCTTGAAGATGCAGCGGAGCAGATTGAAGCCAATAATCCTATCTCCCTGAAATTGTAACG
1 TATCTCCCTGAAGATGCAGCAGAGCAGATTGAAGCAAATAATCCTATCTCCCTGAAATTGCAACG
* * *
53150646 GAGCGGATTAAAACCATAGATCTTATCTCTCTGAAGTTGCAGAGAGCATATCGCAT
66 GAGCAGATTAAAACCATAGATCTTATCTCTCTGAAGTTGCAGAGAACAGATCGCAT
53150702 TGCAGTGGAG
Statistics
Matches: 109, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
128 109 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (128 bp):
TATCTCCCTGAAGATGCAGCAGAGCAGATTGAAGCAAATAATCCTATCTCCCTGAAATTGCAACG
GAGCAGATTAAAACCATAGATCTTATCTCTCTGAAGTTGCAGAGAACAGATCGCATACAGTCT
Found at i:53152230 original size:3 final size:3
Alignment explanation
Indices: 53152222--53152295 Score: 73
Period size: 3 Copynumber: 24.7 Consensus size: 3
53152212 ATTAATTGGT
* *
53152222 TTA TTA TTA TTT TTA TTA TTA TTA TTA TT- TGTCA CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-T-A TTA TTA TTA TTA
*
53152268 TTA TT- TGTA TTA TTA TT- TTT TTA TTA TT
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TT
53152296 TAATTTACCT
Statistics
Matches: 60, Mismatches: 5, Indels: 12
0.78 0.06 0.16
Matches are distributed among these distances:
2 4 0.07
3 54 0.90
4 2 0.03
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:53152263 original size:22 final size:21
Alignment explanation
Indices: 53152222--53152292 Score: 87
Period size: 22 Copynumber: 3.5 Consensus size: 21
53152212 ATTAATTGGT
53152222 TTATTATTATTT-T--TATTA
1 TTATTATTATTTGTACTATTA
53152240 TTATTATTATTTGTCACTATTA
1 TTATTATTATTTGT-ACTATTA
*
53152262 TTATTATTATTTGTATTATTA
1 TTATTATTATTTGTACTATTA
*
53152283 TT-TTTTTATT
1 TTATTATTATT
53152293 ATTTAATTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
18 12 0.26
19 1 0.02
20 7 0.15
21 8 0.17
22 19 0.40
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (21 bp):
TTATTATTATTTGTACTATTA
Found at i:53159390 original size:11 final size:11
Alignment explanation
Indices: 53159348--53159390 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
53159338 TTATTTGTGT
**
53159348 TTATTTTTTCC
1 TTATTTTTTAA
53159359 TTATTTTTTATGA
1 TTATTTTTTA--A
53159372 TTATTTTTTAA
1 TTATTTTTTAA
53159383 TTATTTTT
1 TTATTTTT
53159391 GAACTTTCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 18 0.64
13 10 0.36
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (11 bp):
TTATTTTTTAA
Found at i:53161100 original size:14 final size:14
Alignment explanation
Indices: 53161083--53161118 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
53161073 TCTCTTGATT
*
53161083 TCTCTCTTCTCTAC
1 TCTCTCTTCTCTAA
*
53161097 TCTCTTTTCTCTAA
1 TCTCTCTTCTCTAA
53161111 TCTCTCTT
1 TCTCTCTT
53161119 ATTCTTACTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.08, C:0.36, G:0.00, T:0.56
Consensus pattern (14 bp):
TCTCTCTTCTCTAA
Found at i:53163230 original size:8 final size:8
Alignment explanation
Indices: 53163217--53163260 Score: 88
Period size: 8 Copynumber: 5.5 Consensus size: 8
53163207 ACGCAACATT
53163217 CATTTAGA
1 CATTTAGA
53163225 CATTTAGA
1 CATTTAGA
53163233 CATTTAGA
1 CATTTAGA
53163241 CATTTAGA
1 CATTTAGA
53163249 CATTTAGA
1 CATTTAGA
53163257 CATT
1 CATT
53163261 AAGTTGTAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 36 1.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (8 bp):
CATTTAGA
Found at i:53163492 original size:128 final size:128
Alignment explanation
Indices: 53163261--53163550 Score: 438
Period size: 128 Copynumber: 2.3 Consensus size: 128
53163251 TTTAGACATT
* * * *
53163261 AAGTTGTAGTGGAGCGGATTAAAACCACAGATCTTACCTCTTTGAAATTGCAGTAGAGCAGATCG
1 AAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTACCTCTCTAAAATTGCAGTAGAGCAGATCG
* *
53163326 CATCCAGTCTTATCTCCCTAACAATTAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCTTG
66 CATCCAGTCTTATCTCCCTAACAAGTAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTG
53163389 AAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTACCTCTCTAAAATTGCAGTAGAGCAGATCG
1 AAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTACCTCTCTAAAATTGCAGTAGAGCAGATCG
* * * *
53163454 CATCCAGTCTTATCTCCCTAAGC-AGTAGTGGAGTAGACAGATGAAATCAGTCTTATCTCCCTG
66 CATCCAGTCTTATCTCCCTAA-CAAGTAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTG
* ** *
53163517 AAGTTGCAGTGGAGTAGACCAAAACCACAAATCT
1 AAGTTGCAGTGGAGCAGATTAAAACCACAGATCT
53163551 CATCCCATAG
Statistics
Matches: 147, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
128 146 0.99
129 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (128 bp):
AAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTACCTCTCTAAAATTGCAGTAGAGCAGATCG
CATCCAGTCTTATCTCCCTAACAAGTAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTG
Found at i:53166037 original size:12 final size:12
Alignment explanation
Indices: 53166022--53166072 Score: 63
Period size: 12 Copynumber: 4.4 Consensus size: 12
53166012 ATTTTGTACT
53166022 ATATTTACCTAA
1 ATATTTACCTAA
53166034 ATATTTACCTAA
1 ATATTTACCTAA
*
53166046 AT-TTTA--TACT
1 ATATTTACCTA-A
53166056 ATATTTACCTAA
1 ATATTTACCTAA
53166068 ATATT
1 ATATT
53166073 AATTATAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
9 2 0.06
10 2 0.06
11 8 0.24
12 19 0.58
13 2 0.06
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.47
Consensus pattern (12 bp):
ATATTTACCTAA
Found at i:53174069 original size:21 final size:20
Alignment explanation
Indices: 53174031--53174072 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
53174021 AATTCTGCGT
53174031 GAAATAAATAAGTAAATAAA
1 GAAATAAATAAGTAAATAAA
53174051 GAAATAACATAA-TATAATAAA
1 GAAATAA-ATAAGTA-AATAAA
53174072 G
1 G
53174073 TTACAAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.67, C:0.02, G:0.10, T:0.21
Consensus pattern (20 bp):
GAAATAAATAAGTAAATAAA
Done.