Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold35
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: 4812169
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 17994 characters in sequence are not A, C, G, or T
File 20 of 30
Found at i:3116696 original size:13 final size:13
Alignment explanation
Indices: 3116678--3116704 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3116668 ACATTATGCT
3116678 TTGTATCGATACA
1 TTGTATCGATACA
3116691 TTGTATCGATACA
1 TTGTATCGATACA
3116704 T
1 T
3116705 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3117738 original size:23 final size:23
Alignment explanation
Indices: 3117711--3117754 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
3117701 GCATTGAACC
*
3117711 TTGGGTTATAATCTCTT-AAGAAT
1 TTGGGGTATAAT-TCTTCAAGAAT
3117734 TTGGGGTATAATTCTTCAAGA
1 TTGGGGTATAATTCTTCAAGA
3117755 GATTGTGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (23 bp):
TTGGGGTATAATTCTTCAAGAAT
Found at i:3120263 original size:20 final size:21
Alignment explanation
Indices: 3120236--3120292 Score: 80
Period size: 20 Copynumber: 2.7 Consensus size: 21
3120226 GTCAAAACCC
3120236 AGATGTATCGATACAATGATA
1 AGATGTATCGATACAATGATA
*
3120257 A-ATGTATCGATACAATTATA
1 AGATGTATCGATACAATGATA
*
3120277 AGTATGCATCGATACA
1 AG-ATGTATCGATACA
3120293 TTTACTTATG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
20 19 0.59
21 1 0.03
22 12 0.38
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (21 bp):
AGATGTATCGATACAATGATA
Found at i:3120307 original size:20 final size:21
Alignment explanation
Indices: 3120238--3120314 Score: 79
Period size: 20 Copynumber: 3.7 Consensus size: 21
3120228 CAAAACCCAG
*
3120238 ATGTATCGATACAATGATAA--
1 ATGTATCGATAC-ATTATAAGT
3120258 ATGTATCGATACAATTATAAGT
1 ATGTATCGATAC-ATTATAAGT
* **
3120280 ATGCATCGATACATT-TACTT
1 ATGTATCGATACATTATAAGT
3120300 ATGTATCGATACATT
1 ATGTATCGATACATT
3120315 CCTTGGCAGT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
20 36 0.72
21 3 0.06
22 11 0.22
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (21 bp):
ATGTATCGATACATTATAAGT
Found at i:3125508 original size:20 final size:20
Alignment explanation
Indices: 3125483--3125600 Score: 74
Period size: 20 Copynumber: 5.5 Consensus size: 20
3125473 TTTATCCAGA
3125483 GTATCGATAAATTTTTCAAT
1 GTATCGATAAATTTTTCAAT
3125503 GTATCGATACATTCTATCTTTTACCAGAT
1 GTATCGATA-A----AT-TTTT--CA-AT
* * *
3125532 GTATGGATACATTTTTTAAT
1 GTATCGATAAATTTTTCAAT
* * * *
3125552 GTATCGATACATGTATGAAT
1 GTATCGATAAATTTTTCAAT
* *
3125572 GTATCGATATATTCTTCAAT
1 GTATCGATAAATTTTTCAAT
3125592 GTATCGATA
1 GTATCGATA
3125601 CATTCTATCT
Statistics
Matches: 77, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
20 51 0.66
21 2 0.03
23 4 0.05
24 2 0.03
25 2 0.03
26 4 0.05
28 2 0.03
29 10 0.13
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.42
Consensus pattern (20 bp):
GTATCGATAAATTTTTCAAT
Found at i:3125546 original size:49 final size:49
Alignment explanation
Indices: 3125472--3125654 Score: 161
Period size: 49 Copynumber: 3.9 Consensus size: 49
3125462 AAGTCACATT
*
3125472 TTTTATCCAGA-GTATCGATAAATTTTTCAATGTATCGATACATTCTATC
1 TTTTA-CCAGATGTATCGATACATTTTTCAATGTATCGATACATTCTATC
* * *
3125521 TTTTACCAGATGTATGGATACATTTTTTAATGTATCGATACA-TGTA--
1 TTTTACCAGATGTATCGATACATTTTTCAATGTATCGATACATTCTATC
* * *
3125567 ---T--GA-ATGTATCGATATATTCTTCAATGTATCGATACATTCTATC
1 TTTTACCAGATGTATCGATACATTTTTCAATGTATCGATACATTCTATC
* * * * *
3125610 TTTTTACATAAATGTATCGATGCCTTTCTCAATGTATCGATACAT
1 -TTTTAC-CAGATGTATCGATACATTTTTCAATGTATCGATACAT
3125655 CTAGTTAAAA
Statistics
Matches: 106, Mismatches: 16, Indels: 22
0.74 0.11 0.15
Matches are distributed among these distances:
40 29 0.27
41 4 0.04
43 1 0.01
47 1 0.01
48 8 0.08
49 33 0.31
50 1 0.01
51 29 0.27
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (49 bp):
TTTTACCAGATGTATCGATACATTTTTCAATGTATCGATACATTCTATC
Found at i:3125605 original size:20 final size:20
Alignment explanation
Indices: 3125530--3125606 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 20
3125520 CTTTTACCAG
* * *
3125530 ATGTATGGATACATTTTTTA
1 ATGTATCGATACATTCTTCA
* *
3125550 ATGTATCGATACATGT-ATGA
1 ATGTATCGATACAT-TCTTCA
*
3125570 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTCTTCA
3125590 ATGTATCGATACATTCT
1 ATGTATCGATACATTCT
3125607 ATCTTTTTAC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 1 0.02
20 46 0.96
21 1 0.02
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:3126833 original size:20 final size:19
Alignment explanation
Indices: 3126779--3126835 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
3126769 TTGTATCAAT
*
3126779 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
* * *
3126798 TCATTATATTGATACATGG
1 ACATTGTATCGATACATGG
3126817 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
3126836 AAACTAGCAG
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:3126889 original size:20 final size:20
Alignment explanation
Indices: 3126864--3126917 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
3126854 TTACCACTGT
*
3126864 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
*
3126884 TTGTATCGATACATGATGAG
1 TTGTATCGATACATGATGAA
3126904 TTGTATCGATACAT
1 TTGTATCGATACAT
3126918 TGCTTCTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:3132820 original size:20 final size:21
Alignment explanation
Indices: 3132780--3132827 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
3132770 ACATTTTTTT
*
3132780 GATACAATTTTCCAATTGTATC
1 GATACAATATTCC-ATTGTATC
*
3132802 GATACAATATTCC-TTGTATT
1 GATACAATATTCCATTGTATC
3132822 GATACA
1 GATACA
3132828 TAGCATCGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 12 0.50
22 12 0.50
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (21 bp):
GATACAATATTCCATTGTATC
Found at i:3133499 original size:20 final size:20
Alignment explanation
Indices: 3133474--3133527 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
3133464 GTATCGATAC
**
3133474 AATGTATCGATACATGACTA
1 AATGTATCGATACATGAAAA
*
3133494 AATGTATCGATACTTGAAAA
1 AATGTATCGATACATGAAAA
3133514 AATGTATCGATACA
1 AATGTATCGATACA
3133528 AGTCAATGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.30
Consensus pattern (20 bp):
AATGTATCGATACATGAAAA
Found at i:3133625 original size:33 final size:32
Alignment explanation
Indices: 3133559--3133626 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
3133549 GTAGCTAAAT
* *
3133559 TTGTATCGATACACACAATATGTCTCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
*
3133591 TTGTATCGATACATCATAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
3133624 TTG
1 TTG
3133627 GCTTGTAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:3141686 original size:23 final size:22
Alignment explanation
Indices: 3141644--3141686 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
3141634 CGAAATTGTT
*
3141644 AAATTATTTTATTAAGGGGGAG
1 AAATTATTTTATTAAAGGGGAG
*
3141666 AAATTTTTTTGATTAAAGGGG
1 AAATTATTTT-ATTAAAGGGG
3141687 GAGAGAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.40
Consensus pattern (22 bp):
AAATTATTTTATTAAAGGGGAG
Found at i:3141689 original size:24 final size:22
Alignment explanation
Indices: 3141644--3141690 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 22
3141634 CGAAATTGTT
3141644 AAATTATTTTATTAAGGGGGAG
1 AAATTATTTTATTAAGGGGGAG
*
3141666 AAATTTTTTTGATTAAAGGGGGAG
1 AAATTATTTT-ATT-AAGGGGGAG
3141690 A
1 A
3141691 GAAAAGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.41
23 3 0.14
24 10 0.45
ACGTcount: A:0.36, C:0.00, G:0.28, T:0.36
Consensus pattern (22 bp):
AAATTATTTTATTAAGGGGGAG
Found at i:3142281 original size:20 final size:20
Alignment explanation
Indices: 3142256--3142309 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
3142246 GTATCGATAC
**
3142256 AATGTATCGATACATGACTA
1 AATGTATCGATACATGAAAA
*
3142276 AATGTATCGATACTTGAAAA
1 AATGTATCGATACATGAAAA
3142296 AATGTATCGATACA
1 AATGTATCGATACA
3142310 AGTCAATGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.30
Consensus pattern (20 bp):
AATGTATCGATACATGAAAA
Found at i:3142383 original size:20 final size:20
Alignment explanation
Indices: 3142342--3142393 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
3142332 TAGCTAAATT
*
3142342 TGTATCGATACA-CACAATA
1 TGTATCGATACATCACAAAA
3142361 TGTATCGATACATCACAAAA
1 TGTATCGATACATCACAAAA
3142381 TGTATCGATACAT
1 TGTATCGATACAT
3142394 TGGCTTGTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 12 0.39
20 19 0.61
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (20 bp):
TGTATCGATACATCACAAAA
Found at i:3142447 original size:73 final size:73
Alignment explanation
Indices: 3142360--3142540 Score: 353
Period size: 73 Copynumber: 2.5 Consensus size: 73
3142350 TACACACAAT
3142360 ATGTATCGATACATCACAAAATGTATCGATACATTGGCTTGTAACGGCTATAAACGGCTATATTT
1 ATGTATCGATACATCACAAAATGTATCGATACATTGGCTTGTAACGGCTATAAACGGCTATATTT
3142425 TCAACTGC
66 TCAACTGC
3142433 ATGTATCGATACATCACAAAATGTATCGATACATTGGCTTGTAACGGCTATAAACGGCTATATTT
1 ATGTATCGATACATCACAAAATGTATCGATACATTGGCTTGTAACGGCTATAAACGGCTATATTT
3142498 TCAACTGC
66 TCAACTGC
*
3142506 ATGTATCGATACATCACAAATTGTATCGATACATT
1 ATGTATCGATACATCACAAAATGTATCGATACATT
3142541 TACACGGGAA
Statistics
Matches: 107, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 107 1.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (73 bp):
ATGTATCGATACATCACAAAATGTATCGATACATTGGCTTGTAACGGCTATAAACGGCTATATTT
TCAACTGC
Found at i:3145449 original size:19 final size:18
Alignment explanation
Indices: 3145425--3145463 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
3145415 TTTGTATCGA
*
3145425 TTCATTGTATTGATACATG
1 TTCATTGTATCGATAC-TG
3145444 TTCATTGTATCGATACTG
1 TTCATTGTATCGATACTG
3145462 TT
1 TT
3145464 AGCCCAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.23, C:0.13, G:0.15, T:0.49
Consensus pattern (18 bp):
TTCATTGTATCGATACTG
Found at i:3149731 original size:21 final size:20
Alignment explanation
Indices: 3149690--3149746 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
3149680 CACTTGCAAC
* *
3149690 TCATTTCTTTTCTCCTTTAAT
1 TCATTTATTTTCT-TTTTAAT
3149711 TCATTTATTTTCTTTTCTAAT
1 TCATTTATTTTCTTTT-TAAT
* *
3149732 TCACTTAATTTCTTT
1 TCATTTATTTTCTTT
3149747 CCAAGAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 2 0.06
21 29 0.94
ACGTcount: A:0.18, C:0.19, G:0.00, T:0.63
Consensus pattern (20 bp):
TCATTTATTTTCTTTTTAAT
Found at i:3151891 original size:22 final size:22
Alignment explanation
Indices: 3151851--3151894 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
3151841 ATGAATAGTG
**
3151851 ATGAACAGTGATTTATCGATAC
1 ATGAACAGTGATACATCGATAC
*
3151873 ATGAACAGTGATACGTCGATAC
1 ATGAACAGTGATACATCGATAC
3151895 TATTCATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.27
Consensus pattern (22 bp):
ATGAACAGTGATACATCGATAC
Found at i:3151991 original size:13 final size:13
Alignment explanation
Indices: 3151973--3151997 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3151963 CTGCTAGTTT
3151973 ATGTATCGATACA
1 ATGTATCGATACA
3151986 ATGTATCGATAC
1 ATGTATCGATAC
3151998 TAAGCAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3152339 original size:13 final size:13
Alignment explanation
Indices: 3152321--3152351 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
3152311 AGATATATGG
3152321 TACATTGTATCAA
1 TACATTGTATCAA
*
3152334 TACATTGTATCGA
1 TACATTGTATCAA
3152347 TACAT
1 TACAT
3152352 GATGAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (13 bp):
TACATTGTATCAA
Found at i:3153722 original size:20 final size:20
Alignment explanation
Indices: 3153697--3153736 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
3153687 TTTTAACTAG
3153697 ATGTATCGATACATTATTCA
1 ATGTATCGATACATTATTCA
3153717 ATGTATCGATACATTATTCA
1 ATGTATCGATACATTATTCA
3153737 GGTAAAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTATTCA
Found at i:3153779 original size:20 final size:20
Alignment explanation
Indices: 3153750--3153824 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
3153740 AAAAAGACAT
3153750 AATGTATCGATACATT-AAA
1 AATGTATCGATACATTCAAA
* *
3153769 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCAAA
* * *
3153790 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCAAA
3153810 AATGTATCGATACAT
1 AATGTATCGATACAT
3153825 CTAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:3153818 original size:40 final size:39
Alignment explanation
Indices: 3153747--3153824 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 39
3153737 GGTAAAAAGA
3153747 CATAATGTATCGATACATTAAAGAATATATCGATACATT
1 CATAATGTATCGATACATTAAAGAATATATCGATACATT
* *
3153786 CATACATGTATCGATATATTGAAA-AATGTATCGATACAT
1 CATA-ATGTATCGATACATT-AAAGAATATATCGATACAT
3153825 CTAGGTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
39 4 0.11
40 28 0.80
41 3 0.09
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTAAAGAATATATCGATACATT
Found at i:3155504 original size:28 final size:28
Alignment explanation
Indices: 3154428--3155527 Score: 1177
Period size: 28 Copynumber: 38.5 Consensus size: 28
3154418 CACCGACACG
* * *
3154428 TGTGGGCTTTGAAAAGAGTTACTACTGGCT
1 TGTGGGCTTTG-AAAGAG-TGCCACTGACT
* * *
3154458 TGTGGACTTTGAAAAGAGTGTCACTAACT
1 TGTGGGCTTTG-AAAGAGTGCCACTGACT
** *
3154487 TGTGGGCTTTGAAA-AGGTGTTACTGACC
1 TGTGGGCTTTGAAAGA-GTGCCACTGACT
* * *
3154515 TGTAGGCTTTGAAAG-GATACCACTAACT
1 TGTGGGCTTTGAAAGAG-TGCCACTGACT
* *
3154543 TATGGGC-TTGAAAAAGTGCCACTGACT
1 TGTGGGCTTTGAAAGAGTGCCACTGACT
** * *
3154570 CATGGCCTTTGAAATG-GTGCTACTGACT
1 TGTGGGCTTTGAAA-GAGTGCCACTGACT
** *
3154598 CATGGGCTTTGAAATGAGTGTCACTGACT
1 TGTGGGCTTTGAAA-GAGTGCCACTGACT
* *
3154627 TGCGTGGGCTTTGAAAAGAGTGCAACTAACT
1 T--GTGGGCTTTG-AAAGAGTGCCACTGACT
* *
3154658 TGCGTGGGCTTTAAAAGGGTGCCACTGACAT
1 T--GTGGGCTTTGAAAGAGTGCCACTGAC-T
* *
3154689 GCGTGGGCTTTGAAAG-GATACCACTGACT
1 -TGTGGGCTTTGAAAGAG-TGCCACTGACT
3154718 TGTGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGAGTGCCACTGACT
*
3154746 TGTGGGCTTTGAAAGAGTGCCACTAACT
1 TGTGGGCTTTGAAAGAGTGCCACTGACT
*
3154774 CGTGGGC-TTGAAA-AGGTGCCACTGACCT
1 TGTGGGCTTTGAAAGA-GTGCCACTGA-CT
** * *
3154802 ATGTGGGCTTCAAAAGGGTGCCATTGACT
1 -TGTGGGCTTTGAAAGAGTGCCACTGACT
*
3154831 TGCATGAGCTTTGAAAG-GATGCCACTGACT
1 TG--TGGGCTTTGAAAGAG-TGCCACTGACT
*
3154861 TGTGGGCTTTGAAAGAGTGCCACTAACT
1 TGTGGGCTTTGAAAGAGTGCCACTGACT
** * *
3154889 CATGGGCTTTGAAATGAGTTGCTAC-CAGCT
1 TGTGGGCTTTGAAA-GAG-TGCCACTGA-CT
3154919 TGTGTCGGCTTTGAAAGGAGTGCCACTGACTT
1 TGTG--GGCTTTGAAA-GAGTGCCACTGAC-T
*
3154951 GTGTGGGCTTTGAAAG-GATGCCAATGACT
1 -TGTGGGCTTTGAAAGAG-TGCCACTGACT
*
3154980 TGTGGGCTTTGAAAGAGTGCCACTAACT
1 TGTGGGCTTTGAAAGAGTGCCACTGACT
* *
3155008 CGTGGGC-TTGAAA-AGGTGCTACTGACT
1 TGTGGGCTTTGAAAGA-GTGCCACTGACT
*
3155035 TGTGGGCTTTGAAAGAGTGTCACTGACT
1 TGTGGGCTTTGAAAGAGTGCCACTGACT
*
3155063 TGTGGGCTTTGAAAAGAGTGCCACTGAAT
1 TGTGGGCTTTG-AAAGAGTGCCACTGACT
3155092 TGTGGG-TTTCGAAAGAGTGCCACTGACT
1 TGTGGGCTTT-GAAAGAGTGCCACTGACT
* * * *
3155120 TGTGGCCTTCGAAAGGGTGCCATTGACT
1 TGTGGGCTTTGAAAGAGTGCCACTGACT
* * *
3155148 TGTGGGCTCTGAAAGGGTGCCATTGACT
1 TGTGGGCTTTGAAAGAGTGCCACTGACT
*
3155176 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGAGTGCCACTGACT
* *
3155204 TGTGAGCTTTGAAAGAGTGCCAATGACT
1 TGTGGGCTTTGAAAGAGTGCCACTGACT
3155232 TGTGGGC-TTGAAA-AGGTGCCACTGACT
1 TGTGGGCTTTGAAAGA-GTGCCACTGACT
*
3155259 TGTGGGCTTTGAAAGAGTGCCATTGACT
1 TGTGGGCTTTGAAAGAGTGCCACTGACT
* *
3155287 TATGGGCTTTGAAAGAGTGCCACTGACC
1 TGTGGGCTTTGAAAGAGTGCCACTGACT
* *
3155315 TGTGGGCTTGGAAAGAGTGCCACTGATT
1 TGTGGGCTTTGAAAGAGTGCCACTGACT
*
3155343 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGAGTGCCACTGACT
3155371 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGAGTGCCACTGACT
* *
3155400 TGTGGGCTTTGAAAAGGGTGCTACTGACT
1 TGTGGGCTTTG-AAAGAGTGCCACTGACT
*
3155429 TGTGGGCTTTGAAAGAGTGCCACTAACT
1 TGTGGGCTTTGAAAGAGTGCCACTGACT
3155457 TGTGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGAGTGCCACTGACT
*
3155485 TGTGGGCTTTGAAAGAGTGCCAGTGACT
1 TGTGGGCTTTGAAAGAGTGCCACTGACT
*
3155513 CGTGGGCTTTGAAAG
1 TGTGGGCTTTGAAAG
3155528 GGATGAACAT
Statistics
Matches: 916, Mismatches: 111, Indels: 88
0.82 0.10 0.08
Matches are distributed among these distances:
26 3 0.00
27 83 0.09
28 527 0.58
29 126 0.14
30 106 0.12
31 49 0.05
32 18 0.02
33 4 0.00
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.28
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGAGTGCCACTGACT
Found at i:3170694 original size:20 final size:20
Alignment explanation
Indices: 3170665--3170739 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
3170655 AAAAAGACAT
3170665 AATGTATCGATACATTGAAG
1 AATGTATCGATACATTGAAG
* * *
3170685 AATATATCGATACATTCATG
1 AATGTATCGATACATTGAAG
* * *
3170705 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTGAAG
*
3170725 AATGTATCAATACAT
1 AATGTATCGATACAT
3170740 CTGGGTAAAA
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTGAAG
Found at i:3182760 original size:22 final size:22
Alignment explanation
Indices: 3182735--3182776 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
3182725 AGATAAACAT
3182735 ATTTCTCCCCCTTTATCAAAGC
1 ATTTCTCCCCCTTTATCAAAGC
*
3182757 ATTTCTCCCCCTTTGTCAAA
1 ATTTCTCCCCCTTTATCAAA
3182777 TATCAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.36, G:0.05, T:0.38
Consensus pattern (22 bp):
ATTTCTCCCCCTTTATCAAAGC
Found at i:3186873 original size:20 final size:21
Alignment explanation
Indices: 3186848--3186898 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
3186838 CGATACATTA
*
3186848 TATCGATACATG-ACCA-AATG
1 TATCGATACATGTA-AAGAATG
*
3186868 TATCGATACTTGTAAAGAATG
1 TATCGATACATGTAAAGAATG
3186889 TATCGATACA
1 TATCGATACA
3186899 GGTCATTGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (21 bp):
TATCGATACATGTAAAGAATG
Found at i:3187002 original size:33 final size:32
Alignment explanation
Indices: 3186942--3187006 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
3186932 TAACTGTTTG
* *
3186942 TATCGATACACACAATATGTATTGATACATTA
1 TATCGATACACACAAAATGTATCGATACATTA
*
3186974 TATCGATACATCCCAAAATGTATCGATACATTA
1 TATCGATACA-CACAAAATGTATCGATACATTA
3187007 GCTTATAACG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 10 0.34
33 19 0.66
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.32
Consensus pattern (32 bp):
TATCGATACACACAAAATGTATCGATACATTA
Found at i:3192925 original size:8 final size:8
Alignment explanation
Indices: 3192912--3192937 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
3192902 ATTTGATTAA
3192912 ATTTTGTG
1 ATTTTGTG
3192920 ATTTTGTG
1 ATTTTGTG
3192928 ATTTTGTG
1 ATTTTGTG
3192936 AT
1 AT
3192938 GAATGATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:3193651 original size:20 final size:20
Alignment explanation
Indices: 3193612--3193651 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
3193602 CCTCTAGGCA
* *
3193612 GCACCCCCAGGTTGTGACCG
1 GCACCCCCAGGTCGTAACCG
3193632 GCACCCCCAGGTCGTAACCG
1 GCACCCCCAGGTCGTAACCG
3193652 AGCATCCCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.17, C:0.42, G:0.28, T:0.12
Consensus pattern (20 bp):
GCACCCCCAGGTCGTAACCG
Found at i:3200351 original size:79 final size:79
Alignment explanation
Indices: 3200214--3200380 Score: 219
Period size: 79 Copynumber: 2.1 Consensus size: 79
3200204 AAGAACTATA
** * *
3200214 CCTCAAGTTCCTAAGAGATTGTCACTCAAGGTTGAACACAACCTTATGAAAAATAAAGAATTTGT
1 CCTCAAGTTCCTAAGAGATTAACACTCAAGGTTGAACACAACCCTATGAAAAACAAAGAATTTGT
*
3200279 ACAAACAAGAGTTG
66 ACAAACAAGAATTG
** ** *
3200293 CCTCAAGTTCCTAAGAGATTAACACTCTTCGGTTGAACACAACCCTAT-CTAGACAAAGAATTTG
1 CCTCAAGTTCCTAAGAGATTAACACTC-AAGGTTGAACACAACCCTATGAAAAACAAAGAATTTG
3200357 TACAAACAAGAATTG
65 TACAAACAAGAATTG
3200372 CCTCTAAGT
1 CCTC-AAGT
3200381 AGGCTGGTGT
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
79 55 0.72
80 21 0.28
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (79 bp):
CCTCAAGTTCCTAAGAGATTAACACTCAAGGTTGAACACAACCCTATGAAAAACAAAGAATTTGT
ACAAACAAGAATTG
Found at i:3200766 original size:13 final size:13
Alignment explanation
Indices: 3200748--3200778 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
3200738 ACAATTCATC
3200748 ATGTATCGATACA
1 ATGTATCGATACA
3200761 ATGTATCGATACA
1 ATGTATCGATACA
*
3200774 TTGTA
1 ATGTA
3200779 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3200766 original size:33 final size:33
Alignment explanation
Indices: 3200726--3200794 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
3200716 CCGTTACAAG
* *
3200726 CAATGTATTGATACAATT-CATCATGTATCGATA
1 CAATGTATCGATAC-ATTGCACCATGTATCGATA
*
3200759 CAATGTATCGATACATTGTACCATGTATCGATA
1 CAATGTATCGATACATTGCACCATGTATCGATA
3200792 CAA
1 CAA
3200795 ATAGTGGTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
32 3 0.09
33 29 0.91
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.33
Consensus pattern (33 bp):
CAATGTATCGATACATTGCACCATGTATCGATA
Found at i:3200877 original size:19 final size:20
Alignment explanation
Indices: 3200823--3200878 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
3200813 CTACCAATTT
* *
3200823 CATGTATCGATACAATTATC
1 CATGTATCGATACAATGATA
* *
3200843 CATTTATCGATGCAATGA-A
1 CATGTATCGATACAATGATA
*
3200862 CATGTATCAATACAATG
1 CATGTATCGATACAATG
3200879 TATCGATACA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACAATGATA
Found at i:3205083 original size:29 final size:28
Alignment explanation
Indices: 3204985--3205379 Score: 388
Period size: 28 Copynumber: 14.0 Consensus size: 28
3204975 TATGACCCTT
*
3204985 TTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
3205013 TTTCAAAGCCCACATGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
3205041 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
3205069 TTCTCAAAGCCCACAAGGT-AGTGGCATCC
1 TT-TCAAAGCCCACAA-GTCAGTGGCATCC
* *
3205098 TTTTAAAGCCCATAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* * *
3205126 TGTCAAAGCCCA-AATGTAAGTGGCATTC
1 TTTCAAAGCCCACAA-GTCAGTGGCATCC
* *
3205154 TTTCAAA-CCCACAAGTTAGTGGAATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
3205181 TTCTCAAAGCTCACAAGTCAGTAGCAT-C
1 TT-TCAAAGCCCACAAGTCAGTGGCATCC
* *
3205209 TTTCACAAAGTCCACATGTCAGTGGCATCC
1 TTT--CAAAGCCCACAAGTCAGTGGCATCC
** *
3205239 TTTTCAAAGCCCATGAGTCAATGGCATCC
1 -TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
3205268 TTTTCAAATCCCATAAGTCAGTGGCATCC
1 -TTTCAAAGCCCACAAGTCAGTGGCATCC
* * **
3205297 TTCTCAAAGCCAATAAGTCAGTGGCGCCCC
1 TT-TCAAAGCCCACAAGTCAGTGGC-ATCC
* * *
3205327 TTT--AAGCCCATAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* * * *
3205353 TTTCGAAGCCCATAAATTAGTGGCATC
1 TTTCAAAGCCCACAAGTCAGTGGCATC
3205380 TGTCGTAACG
Statistics
Matches: 314, Mismatches: 38, Indels: 30
0.82 0.10 0.08
Matches are distributed among these distances:
26 6 0.02
27 38 0.12
28 135 0.43
29 125 0.40
30 7 0.02
31 3 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCC
Found at i:3205132 original size:85 final size:84
Alignment explanation
Indices: 3204985--3205383 Score: 405
Period size: 85 Copynumber: 4.7 Consensus size: 84
3204975 TATGACCCTT
* * * *
3204985 TTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACATGTTAGTGGCATCCTTTCAAAGC
1 TTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCATAAGTCAGTGGCATCCTGTCAAAGC
3205050 CCACAAGTCAGTGGCATCC
66 CCACAAGTCAGTGGCATCC
* *
3205069 TTCTCAAAGCCCACAAGGTAGTGGCATCCTTTTAAAGCCCATAAGTCAGTGGCATCCTGTCAAAG
1 TT-TCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCATAAGTCAGTGGCATCCTGTCAAAG
* *
3205134 CCCA-AATGTAAGTGGCATTC
65 CCCACAA-GTCAGTGGCATCC
* * * * *
3205154 TTTCAAA-CCCACAAGTTAGTGGAATCCTTCTCAAAGCTCACAAGTCAGTAGCAT-CTTTCACAA
1 TTTCAAAGCCCACAAGTTAGTGGCATCCTT-TCAAAGCCCATAAGTCAGTGGCATCCTGT--CAA
* *
3205217 AGTCCACATGTCAGTGGCATCC
63 AGCCCACAAGTCAGTGGCATCC
** * * * *
3205239 TTTTCAAAGCCCATGAGTCAATGGCATCCTTTTCAAATCCCATAAGTCAGTGGCATCCTTCTCAA
1 -TTTCAAAGCCCACAAGTTAGTGGCATCC-TTTCAAAGCCCATAAGTCAGTGGCATCC-TGTCAA
* * **
3205304 AGCCAATAAGTCAGTGGCGCCCC
63 AGCCCACAAGTCAGTGGC-ATCC
* * * * *
3205327 TTT--AAGCCCATAAGTTAGTGGCACCCTTTCGAAGCCCATAAATTAGTGGCAT-CTGTC
1 TTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCATAAGTCAGTGGCATCCTGTC
3205384 GTAACGTGCG
Statistics
Matches: 259, Mismatches: 44, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
82 3 0.01
83 24 0.09
84 51 0.20
85 111 0.43
86 8 0.03
87 55 0.21
88 5 0.02
89 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (84 bp):
TTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCATAAGTCAGTGGCATCCTGTCAAAGC
CCACAAGTCAGTGGCATCC
Found at i:3208637 original size:19 final size:19
Alignment explanation
Indices: 3208613--3208662 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
3208603 AGCGATACAT
3208613 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
3208632 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
3208651 TGTATCGATACA
1 TGTATCGATACA
3208663 GTTACGGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:3209672 original size:92 final size:92
Alignment explanation
Indices: 3209515--3210222 Score: 927
Period size: 92 Copynumber: 7.5 Consensus size: 92
3209505 TTAGGAATGA
* * *
3209515 TAAAGATGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAGATACCAATGTG
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATACCAATGTG
* *
3209580 CTGATTCAAGGCCGATGACATTGGACT
66 CTGATTCAAGGCCGACGACATTGGTCT
*
3209607 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGATACCAATGTG
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATACCAATGTG
* * *
3209672 CTGATTCAAGGCTGGCGACATTGGACT
66 CTGATTCAAGGCCGACGACATTGGTCT
* * *
3209699 CAAAAGTGCCAATATGCTGATTCAAGGTCAGCGATATTGGACTTAAAGATGAAGATACCAATGTG
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATACCAATGTG
* * * *
3209764 TTGTTTCAAGGCCGGCGACATTGGACT
66 CTGATTCAAGGCCGACGACATTGGTCT
* *
3209791 CAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGATACCAATGTG
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATACCAATGTG
*
3209856 GTGATTCAAGGCC-AGCGACATTGGTCT
66 CTGATTCAAGGCCGA-CGACATTGGTCT
* *
3209883 CAAAGGTGCCAATATGCTGATTCAAGGTCAGCGATATTGGACTTAAAGATGAAGATACCAATGTG
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATACCAATGTG
*
3209948 CTGATTCAAGGCCGGCGACATTGGTCT
66 CTGATTCAAGGCCGACGACATTGGTCT
* *
3209975 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGGTTAAGGTGCCAAT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-G--AAGATACCAAT
*
3210040 GTGCTGAGTCAAGGCC-AGCGACATTGGTCT
63 GTGCTGATTCAAGGCCGA-CGACATTGGTCT
3210070 TAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGGTTAA-AGT
1 T----A-AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-G--AAGA-T
* * * * *
3210134 GCTAATGTGCTGAGTCGAGGCCAACGACATTGGTCT
57 ACCAATGTGCTGATTCAAGGCCGACGACATTGGTCT
* * *
3210170 TAAAGACAAGGTGCCAATATGCTGATTCAAGGTCAACGATATTGGACATAAAG
1 T----A-AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
3210223 GTGCCACGGA
Statistics
Matches: 566, Mismatches: 37, Indels: 18
0.91 0.06 0.03
Matches are distributed among these distances:
92 389 0.69
93 1 0.00
95 37 0.07
99 1 0.00
100 137 0.24
101 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (92 bp):
TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATACCAATGTG
CTGATTCAAGGCCGACGACATTGGTCT
Found at i:3210166 original size:52 final size:52
Alignment explanation
Indices: 3209974--3210222 Score: 244
Period size: 48 Copynumber: 4.9 Consensus size: 52
3209964 GACATTGGTC
* *
3209974 TTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGG
1 TTAAA-GTGCCAATATGCTGAGTCAAGGCCAGCGACATTGGACTTAAAGATGG
* * *
3210027 TTAAGGTGCCAATGTGCTGAGTCAAGGCCAGCGACATTGGTCTTAAAGA---
1 TTAAAGTGCCAATATGCTGAGTCAAGGCCAGCGACATTGGACTTAAAGATGG
* * * *
3210076 -CAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGG
1 TTAAAGTGCCAATATGCTGAGTCAAGGCCAGCGACATTGGACTTAAAGATGG
* * * * *
3210127 TTAAAGTGCTAATGTGCTGAGTCGAGGCCAACGACATTGGTCTTAAAGA---
1 TTAAAGTGCCAATATGCTGAGTCAAGGCCAGCGACATTGGACTTAAAGATGG
* * * * * * *
3210176 -CAAGGTGCCAATATGCTGATTCAAGGTCAACGATATTGGACATAAAG
1 TTAAAGTGCCAATATGCTGAGTCAAGGCCAGCGACATTGGACTTAAAG
3210223 GTGCCACGGA
Statistics
Matches: 163, Mismatches: 29, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
48 80 0.49
52 79 0.48
53 4 0.02
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.25
Consensus pattern (52 bp):
TTAAAGTGCCAATATGCTGAGTCAAGGCCAGCGACATTGGACTTAAAGATGG
Found at i:3210254 original size:27 final size:27
Alignment explanation
Indices: 3210222--3210327 Score: 113
Period size: 27 Copynumber: 3.7 Consensus size: 27
3210212 TGGACATAAA
*
3210222 GGTGCCACGGAGTTGTAGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
** *
3210249 GGTGCCACAAAGTTATGGACTTAAAAGG
1 GGTGCCACGGAGTTGTGGACTTAAAA-G
3210277 AACAAGGTGCCACGGAGTTGTGGACTTAAAAG
1 -----GGTGCCACGGAGTTGTGGACTTAAAAG
*
3210309 GGTGCCACTGAGTTGTGGA
1 GGTGCCACGGAGTTGTGGA
3210328 TTTTGGAGAA
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
27 40 0.62
28 1 0.02
32 1 0.02
33 23 0.35
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.22
Consensus pattern (27 bp):
GGTGCCACGGAGTTGTGGACTTAAAAG
Found at i:3210415 original size:29 final size:29
Alignment explanation
Indices: 3210311--3210423 Score: 140
Period size: 29 Copynumber: 3.9 Consensus size: 29
3210301 CTTAAAAGGG
* *
3210311 TGCCACTGAGTTGT-GGATTTTGGAGAAA-A
1 TGCCACTGACTTGTGGGCTTTT-GA-AAAGA
* *
3210340 TGCCACTGACTTGTGGGCTTTGGAACAGA
1 TGCCACTGACTTGTGGGCTTTTGAAAAGA
3210369 GTGCCACTGACTTGTGGGCTTTTGAAAAGA
1 -TGCCACTGACTTGTGGGCTTTTGAAAAGA
*
3210399 TGCCACTAACTTGTGGGCTTTTGAA
1 TGCCACTGACTTGTGGGCTTTTGAA
3210424 GGTGAGGGAT
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
28 2 0.03
29 40 0.54
30 32 0.43
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (29 bp):
TGCCACTGACTTGTGGGCTTTTGAAAAGA
Found at i:3223861 original size:13 final size:13
Alignment explanation
Indices: 3223845--3223872 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3223835 TACAAAAGAT
3223845 CAATGTATCGATA
1 CAATGTATCGATA
3223858 CAATGTATCGATA
1 CAATGTATCGATA
3223871 CA
1 CA
3223873 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:3223958 original size:32 final size:32
Alignment explanation
Indices: 3223912--3223987 Score: 125
Period size: 32 Copynumber: 2.4 Consensus size: 32
3223902 GTAGTAGCTT
*
3223912 TGTAGCGATACATTGTATCGATACAAAACTTA
1 TGTATCGATACATTGTATCGATACAAAACTTA
* *
3223944 TTTATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAAAACTTA
3223976 TGTATCGATACA
1 TGTATCGATACA
3223988 GTTACGGTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAAAACTTA
Found at i:3223981 original size:19 final size:19
Alignment explanation
Indices: 3223925--3223987 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
3223915 AGCGATACAT
*
3223925 TGTATCGATACAAAACTTA
1 TGTATCGATACAACACTTA
*
3223944 TTTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
3223957 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
3223976 TGTATCGATACA
1 TGTATCGATACA
3223988 GTTACGGTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
13 8 0.23
14 1 0.03
16 5 0.14
18 1 0.03
19 20 0.57
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:3224994 original size:92 final size:92
Alignment explanation
Indices: 3224837--3225453 Score: 876
Period size: 92 Copynumber: 6.6 Consensus size: 92
3224827 CTTAGGAATG
* * * * *
3224837 TTAAAGATGCCAATATCCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAGATACCAATGT
1 TTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGATACCAATGT
* *
3224902 GCTGATTCAAGGCCAGCGACATTGGAC
66 GCTGATTCAAGGCCGGCGACATTGGTC
3224929 TTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGATACCAATGT
1 TTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGATACCAATGT
*
3224994 GCTGATTCAAGGCCGGCGACATTGGAC
66 GCTGATTCAAGGCCGGCGACATTGGTC
* * *
3225021 TCAAAGGTGCCAATATGCTGATTCAAGGTCAGCGATATTGGACTTAAAGATGAAGATACCAATGT
1 TTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGATACCAATGT
3225086 GCTGATTCAAGGCCGGCGACATTGGTC
66 GCTGATTCAAGGCCGGCGACATTGGTC
* * * *
3225113 TCAAAGGCGCCAATATACTGATTCAAGGCCAGCGATATTGGAC-TCAAGGATGAAGATACCAATG
1 TTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGG-TGAAGATACCAATG
* *
3225177 TGTTGATTCAAGGCCGACGACATTGGTC
65 TGCTGATTCAAGGCCGGCGACATTGGTC
*
3225205 TTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATACCAATGT
1 TTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGATACCAATGT
*
3225270 GCTGATTCAAGGCCGGCGACATTGGTT
66 GCTGATTCAAGGCCGGCGACATTGGTC
* *
3225297 TTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGGTTAAGGT
1 TT----A-AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-GGTGAAGAT
* * *
3225362 GCCAATGTGCTGAGTCAAGGCCAGCGACATTGGTC
58 ACCAATGTGCTGATTCAAGGCCGGCGACATTGGTC
*
3225397 TTAAAGACAAGGTGCCAATATGATGATTCAAGGCCAGCGATATTGGACTTAAAGGTG
1 TT----A-AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTG
3225454 CCACGGAGTT
Statistics
Matches: 481, Mismatches: 34, Indels: 15
0.91 0.06 0.03
Matches are distributed among these distances:
91 4 0.01
92 335 0.70
93 4 0.01
96 1 0.00
97 45 0.09
98 3 0.01
99 3 0.01
100 86 0.18
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (92 bp):
TTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGATACCAATGT
GCTGATTCAAGGCCGGCGACATTGGTC
Found at i:3225549 original size:27 final size:27
Alignment explanation
Indices: 3225440--3225555 Score: 112
Period size: 27 Copynumber: 4.1 Consensus size: 27
3225430 CCAGCGATAT
3225440 TGGACTT-AAA-GGTGCCACGGAGTTG
1 TGGACTTAAAAGGGTGCCACGGAGTTG
* *
3225465 TGGACTTAAAAGGGTGCCA-GAAAGTTA
1 TGGACTTAAAAGGGTGCCACG-GAGTTG
3225492 TGGACTTAAAAGGAACAAGGTGCCACGGAGTTG
1 TGGACTTAAAA-G-----GGTGCCACGGAGTTG
* *
3225525 TGGACATAAAAGGGTGCCACTGAGTTG
1 TGGACTTAAAAGGGTGCCACGGAGTTG
3225552 TGGA
1 TGGA
3225556 TTTTGGAAAA
Statistics
Matches: 75, Mismatches: 6, Indels: 18
0.76 0.06 0.18
Matches are distributed among these distances:
25 7 0.09
26 4 0.05
27 40 0.53
28 1 0.01
32 1 0.01
33 21 0.28
34 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.22
Consensus pattern (27 bp):
TGGACTTAAAAGGGTGCCACGGAGTTG
Found at i:3225643 original size:29 final size:29
Alignment explanation
Indices: 3225539--3225651 Score: 129
Period size: 29 Copynumber: 3.9 Consensus size: 29
3225529 CATAAAAGGG
* * *
3225539 TGCCACTGAGTTGT-GGATTTTGGAAAATA
1 TGCCACTGACTTGTGGGCTTTT-GAAAAGA
* *
3225568 TGCCACTCACTTGTGGGCTTTGGAAAAGA
1 TGCCACTGACTTGTGGGCTTTTGAAAAGA
* *
3225597 GTGCCGCTGACTTATGGGCTTTTGAAAAGA
1 -TGCCACTGACTTGTGGGCTTTTGAAAAGA
*
3225627 TGCCACTAACTTGTGGGCTTTTGAA
1 TGCCACTGACTTGTGGGCTTTTGAA
3225652 GGTGAGGGAT
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
29 40 0.57
30 30 0.43
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (29 bp):
TGCCACTGACTTGTGGGCTTTTGAAAAGA
Found at i:3226007 original size:30 final size:32
Alignment explanation
Indices: 3225934--3226007 Score: 84
Period size: 30 Copynumber: 2.4 Consensus size: 32
3225924 TCTACAGCAT
*
3225934 CCTTTTAAAGCC--CACAAGTTGGTGGCAACA
1 CCTTCTAAAGCCTACACAAGTTGGTGGCAACA
** *
3225964 TTTTCTAAAGCCTACACACGTTGGTGGCAAC-
1 CCTTCTAAAGCCTACACAAGTTGGTGGCAACA
3225995 CCTTCT-AAGCCTA
1 CCTTCTAAAGCCTA
3226008 ATGTCTCTAG
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
30 16 0.44
31 4 0.11
32 16 0.44
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (32 bp):
CCTTCTAAAGCCTACACAAGTTGGTGGCAACA
Found at i:3229083 original size:79 final size:79
Alignment explanation
Indices: 3228916--3229119 Score: 209
Period size: 79 Copynumber: 2.6 Consensus size: 79
3228906 GAGATAATAA
* * * * ** *
3228916 CGGGGTTGGAGTGTTCCCTTGAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATAGATGA
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATAGATGA
*
3228981 TTAGAAAAAAAAAT
66 TTAGAAAAAAAAAC
*
3228995 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCA-AT-
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAAT-AGATG
* * *
3229058 ATTTTAG-GAATAAAGC
65 A--TTAGAAAAAAAAAC
* **
3229074 CGGGGTTGGAGCATCCCCTC-AGAGGTAACGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCCTCGA-AAATAACGGGGTTGGAGTATCCCC
3229120 GATGAAATAA
Statistics
Matches: 105, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
78 2 0.02
79 98 0.93
80 5 0.05
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATAGATGA
TTAGAAAAAAAAAC
Found at i:3229117 original size:28 final size:28
Alignment explanation
Indices: 3229074--3229145 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
3229064 GGAATAAAGC
* **
3229074 CGGGGTTGGAGCATCCCCTCA-GAGGTAA
1 CGGGGTTGGAGTATCCCC-CATGAAATAA
*
3229102 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCCATGAAATAA
*
3229130 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
3229146 TCGATTGTGA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
27 1 0.03
28 37 0.97
ACGTcount: A:0.24, C:0.21, G:0.35, T:0.21
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCCATGAAATAA
Found at i:3229205 original size:54 final size:51
Alignment explanation
Indices: 3229138--3229256 Score: 134
Period size: 51 Copynumber: 2.3 Consensus size: 51
3229128 AACGAGGTTG
* * *
3229138 GAGTATCCTCGATTGT-GAAAAATTTGTGTTTTTTTGAAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTGTAG-AAAATTAGTG---TTTTGAAAATAAAATCGGAGATA
* *
3229192 GAGTATCCCCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCGGAGATG
1 GAGTATCCCCGATTGTAGAAAATTAGTGTTTTGAAAATAAAATCGGAGATA
*
3229243 GAATAT-CCCGATTG
1 GAGTATCCCCGATTG
3229257 CGGAGAATTG
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
50 7 0.12
51 26 0.46
54 23 0.40
55 1 0.02
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.34
Consensus pattern (51 bp):
GAGTATCCCCGATTGTAGAAAATTAGTGTTTTGAAAATAAAATCGGAGATA
Found at i:3231636 original size:13 final size:13
Alignment explanation
Indices: 3231618--3231643 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3231608 ACAAAGATCC
3231618 ATGTATCGATACA
1 ATGTATCGATACA
3231631 ATGTATCGATACA
1 ATGTATCGATACA
3231644 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3231639 original size:33 final size:33
Alignment explanation
Indices: 3231597--3231663 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3231587 AAAATTTCCA
***
3231597 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
3231630 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
3231663 A
1 A
3231664 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:3231707 original size:19 final size:18
Alignment explanation
Indices: 3231683--3231750 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
3231673 CAGTAGCTAA
3231683 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
3231702 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
3231717 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
3231734 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
3231751 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:3231723 original size:13 final size:13
Alignment explanation
Indices: 3231705--3231729 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3231695 ACAATACTTA
3231705 TGTATCGATACAT
1 TGTATCGATACAT
3231718 TGTATCGATACA
1 TGTATCGATACA
3231730 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3231727 original size:32 final size:32
Alignment explanation
Indices: 3231686--3231748 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
3231676 TAGCTAATTA
*
3231686 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
3231718 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
3231749 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:3240780 original size:8 final size:8
Alignment explanation
Indices: 3240769--3240798 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
3240759 TTTTTGGTTT
*
3240769 TTTTTTTG
1 TTTTTTTA
3240777 TTTTTTTA
1 TTTTTTTA
3240785 TTTTTTTA
1 TTTTTTTA
3240793 TTTTTT
1 TTTTTT
3240799 GGTACGAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.07, C:0.00, G:0.03, T:0.90
Consensus pattern (8 bp):
TTTTTTTA
Found at i:3240797 original size:28 final size:28
Alignment explanation
Indices: 3240743--3240798 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
3240733 GACCCTTCTA
*
3240743 TTTTTATTTGTTTAGTTTTTTGGTTTTT
1 TTTTTATTTGTTTAGTTTTTTAGTTTTT
* * *
3240771 TTTTTGTTTTTTTATTTTTTTA-TTTTT
1 TTTTTATTTGTTTAGTTTTTTAGTTTTT
3240798 T
1 T
3240799 GGTACGAAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.07, C:0.00, G:0.09, T:0.84
Consensus pattern (28 bp):
TTTTTATTTGTTTAGTTTTTTAGTTTTT
Found at i:3245579 original size:9 final size:9
Alignment explanation
Indices: 3245565--3245607 Score: 72
Period size: 9 Copynumber: 5.0 Consensus size: 9
3245555 CCACATTCTT
3245565 TTAAAAAAA
1 TTAAAAAAA
3245574 TT-AAAAAA
1 TTAAAAAAA
3245582 TT-AAAAAA
1 TTAAAAAAA
3245590 TTAAAAAAA
1 TTAAAAAAA
3245599 TTAAAAAAA
1 TTAAAAAAA
3245608 AACAAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 16 0.48
9 17 0.52
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
TTAAAAAAA
Found at i:3245587 original size:7 final size:8
Alignment explanation
Indices: 3245568--3245606 Score: 69
Period size: 8 Copynumber: 4.8 Consensus size: 8
3245558 CATTCTTTTA
3245568 AAAAAATT
1 AAAAAATT
3245576 AAAAAATT
1 AAAAAATT
3245584 AAAAAATT
1 AAAAAATT
3245592 AAAAAAATT
1 -AAAAAATT
3245601 AAAAAA
1 AAAAAA
3245607 AAACAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 22 0.73
9 8 0.27
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAAAATT
Found at i:3245587 original size:17 final size:16
Alignment explanation
Indices: 3245568--3245606 Score: 69
Period size: 17 Copynumber: 2.4 Consensus size: 16
3245558 CATTCTTTTA
3245568 AAAAAATTAAAAAATT
1 AAAAAATTAAAAAATT
3245584 AAAAAATTAAAAAAATT
1 AAAAAATT-AAAAAATT
3245601 AAAAAA
1 AAAAAA
3245607 AAACAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (16 bp):
AAAAAATTAAAAAATT
Found at i:3245605 original size:1 final size:1
Alignment explanation
Indices: 3245601--3245643 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
3245591 TAAAAAAATT
* * * *
3245601 AAAAAAAAACAAAAAAACAAAAAAAAGAAAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3245644 GAGAGAAAAG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.91, C:0.05, G:0.05, T:0.00
Consensus pattern (1 bp):
A
Found at i:3245614 original size:9 final size:9
Alignment explanation
Indices: 3245602--3245643 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
3245592 AAAAAAATTA
3245602 AAAAAAAAC
1 AAAAAAAAC
3245611 -AAAAAAAC
1 AAAAAAAAC
*
3245619 AAAAAAAAG
1 AAAAAAAAC
*
3245628 AAAAAAAAG
1 AAAAAAAAC
3245637 AAAAAAA
1 AAAAAAA
3245644 GAGAGAAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 8 0.26
9 23 0.74
ACGTcount: A:0.90, C:0.05, G:0.05, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:3245614 original size:17 final size:17
Alignment explanation
Indices: 3245576--3245615 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
3245566 TAAAAAAATT
*
3245576 AAAAAATTAAAAAATTA
1 AAAAAATTAAAAAATAA
3245593 AAAAAATTAAAAAA-AA
1 AAAAAATTAAAAAATAA
3245609 ACAAAAA
1 A-AAAAA
3245616 AACAAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 2 0.10
17 19 0.90
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAAAATTAAAAAATAA
Found at i:3245631 original size:8 final size:8
Alignment explanation
Indices: 3245603--3245657 Score: 56
Period size: 9 Copynumber: 6.5 Consensus size: 8
3245593 AAAAAATTAA
*
3245603 AAAAAAAC
1 AAAAAAAG
*
3245611 AAAAAAACA
1 AAAAAAA-G
3245620 AAAAAAAG
1 AAAAAAAG
3245628 AAAAAAAAG
1 -AAAAAAAG
3245637 AAAAAAAG
1 AAAAAAAG
*
3245645 AGAGAAAAG
1 A-AAAAAAG
3245654 AAAA
1 AAAA
3245658 GAGCATGCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
8 18 0.45
9 22 0.55
ACGTcount: A:0.85, C:0.04, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:3245644 original size:17 final size:17
Alignment explanation
Indices: 3245603--3245657 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
3245593 AAAAAATTAA
*
3245603 AAAAAAACAAAAAAACA-
1 AAAAAAAGAAAAAAA-AG
3245620 AAAAAAAGAAAAAAAAG
1 AAAAAAAGAAAAAAAAG
* *
3245637 AAAAAAAGAGAGAAAAG
1 AAAAAAAGAAAAAAAAG
3245654 AAAA
1 AAAA
3245658 GAGCATGCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
16 1 0.03
17 33 0.97
ACGTcount: A:0.85, C:0.04, G:0.11, T:0.00
Consensus pattern (17 bp):
AAAAAAAGAAAAAAAAG
Found at i:3245652 original size:26 final size:26
Alignment explanation
Indices: 3245602--3245657 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
3245592 AAAAAAATTA
3245602 AAAAAAAACAAAAAAACAAAAAAAAG
1 AAAAAAAACAAAAAAACAAAAAAAAG
* * * *
3245628 AAAAAAAAGAAAAAAAGAGAGAAAAG
1 AAAAAAAACAAAAAAACAAAAAAAAG
3245654 AAAA
1 AAAA
3245658 GAGCATGCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.86, C:0.04, G:0.11, T:0.00
Consensus pattern (26 bp):
AAAAAAAACAAAAAAACAAAAAAAAG
Found at i:3246881 original size:61 final size:61
Alignment explanation
Indices: 3246753--3247118 Score: 455
Period size: 61 Copynumber: 6.1 Consensus size: 61
3246743 AAGCAAGATA
* * * *
3246753 CCTTTCAAAGCCCACATAAATTGGTGGCACTTTTCTC-GTCCTCAAAGAGTAGGACGCTTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTC-CAGTCCTCAAAGAGTAGGACGCCTTTT
* * * *
3246815 CCTTTTAAAGCCCACACAAGTCGGTGGCACCTTCTAGTCCTCGAAA-AGTAGGACACCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTC-AAAGAGTAGGACGCCTTTT
* * *
3246876 CCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTCCCAGTCCTTAAAGAGCAAGACG------
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTT-CCAGTCCTCAAAGAGTAGGACGCCTTTT
*
3246931 CCTTTTAAAGCCCACATAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGTAGGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGTAGGACGCCTTTT
* * *
3246992 CCTTTTAAAGCCCACACAAGCTGGTGGCACCTT-CAGTCCTCAAAGAGTAGGACGCCTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGTAGGACGCCTTTT
* * * *
3247052 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCGTCAAAGAGCAGGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGTAGGACGCCTTTT
3247113 CCTTTT
1 CCTTTT
3247119 CTCCTTTGCC
Statistics
Matches: 263, Mismatches: 29, Indels: 25
0.83 0.09 0.08
Matches are distributed among these distances:
55 47 0.18
56 3 0.01
60 62 0.24
61 122 0.46
62 29 0.11
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (61 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGTAGGACGCCTTTT
Found at i:3246960 original size:116 final size:116
Alignment explanation
Indices: 3246815--3247118 Score: 371
Period size: 116 Copynumber: 2.6 Consensus size: 116
3246805 GACGCTTTTT
* *
3246815 CCTTTTAAAGCCCACACAAGTCGGTGGCACCTTCTAGTCCTCGAAA-AGTAGGACACCTTTTCCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTC-AAAGAGTAGGACACCTTTTCCT
* * *
3246879 TTTAAAGCCCACACAAGTTGGTGGCA-TTTCCCAGTCCTTAAAGAGCAAGACG-
65 TTTAAAGCCCACACAAGCTGGTGGCACCTT--CAGTCCTCAAAGAGCAAGACGC
* * *
3246931 CCTTTTAAAGCCCACATAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGTAGGACGCCTTTTCCTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGTAGGACACCTTTTCCTT
* *
3246996 TTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGTAGGACGCCTTC
66 TTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAAGACG----C
* * * * **
3247051 TCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCGTCAAAGAGCAGGATGCCTTTTCCT
1 -CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGTAGGACACCTTTTCCT
3247116 TTT
65 TTT
3247119 CTCCTTTGCC
Statistics
Matches: 165, Mismatches: 15, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
115 21 0.13
116 80 0.48
117 2 0.01
121 62 0.38
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (116 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGTAGGACACCTTTTCCTT
TTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAAGACGC
Found at i:3247112 original size:176 final size:177
Alignment explanation
Indices: 3246730--3247112 Score: 578
Period size: 176 Copynumber: 2.2 Consensus size: 177
3246720 CCTTTCACCC
* * *
3246730 TTCAGTCCTCAAAAAGCAAGATACCTTTCAAAGCCCACATAAATTGGTGGCACTTTTCTCGTCCT
1 TTCAGTCCTCAAAGAGCAAGATGCCTTTTAAAGCCCACATAAATTGGTGGCACTTTTCTCGTCCT
*
3246795 CAAAGAGTAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTCGGTGGCACCTTCTAGTCCTCGAA
66 CAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTCGGTGGCACCTTCTAGTCCTCGAA
*
3246860 AAGTAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATT
131 AAGTAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATT
* * * *
3246907 TCCCAGTCCTTAAAGAGCAAGACGCCTTTTAAAGCCCACATAAGTTGGTGGCAC-TTTC-CAGTC
1 T-TCAGTCCTCAAAGAGCAAGATGCCTTTTAAAGCCCACATAAATTGGTGGCACTTTTCTC-GTC
3246970 CTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAG-CTGGTGGCACCTTC-AGTCCTC
64 CTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTC-GGTGGCACCTTCTAGTCCTC
*
3247033 -AAAGAGTAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTT
128 GAAA-AGTAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-TT
* *
3247084 TTCAGTCGTCAAAGAGCAGGATGCCTTTT
1 TTCAGTCCTCAAAGAGCAAGATGCCTTTT
3247113 CCTTTTCTCC
Statistics
Matches: 186, Mismatches: 15, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
175 3 0.02
176 74 0.40
177 64 0.34
178 45 0.24
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (177 bp):
TTCAGTCCTCAAAGAGCAAGATGCCTTTTAAAGCCCACATAAATTGGTGGCACTTTTCTCGTCCT
CAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTCGGTGGCACCTTCTAGTCCTCGAA
AAGTAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATT
Found at i:3247139 original size:37 final size:37
Alignment explanation
Indices: 3247097--3247167 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
3247087 AGTCGTCAAA
*
3247097 GAGCAGGATGCCTTTTCCTTTTCTCCTTTGCCCTCTT
1 GAGCAGGACGCCTTTTCCTTTTCTCCTTTGCCCTCTT
* *
3247134 GAGCAGGACGCTTTTTCCTTTTTTCCTTTGCCCT
1 GAGCAGGACGCCTTTTCCTTTTCTCCTTTGCCCT
3247168 TAAAGAGCAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.08, C:0.31, G:0.17, T:0.44
Consensus pattern (37 bp):
GAGCAGGACGCCTTTTCCTTTTCTCCTTTGCCCTCTT
Found at i:3247288 original size:41 final size:41
Alignment explanation
Indices: 3247146--3247391 Score: 189
Period size: 41 Copynumber: 5.8 Consensus size: 41
3247136 GCAGGACGCT
* * *
3247146 TTTTCCTTTTTTCCTTTGCCCTTAAAGAGCAGGATGCAC-TTCA
1 TTTTCC-TTTTTCCTTTGTCCTCAAAGAGCAGGA--CACATTTA
*
3247189 -TTTCCTTTTTTGCCCTTCTAGTTCTCAAAGAGCAGGACACACTTTA
1 TTTTCC-TTTTT--CCTT-T-GTCCTCAAAGAGCAGGACACA-TTTA
*
3247235 TTCTT-CTTTTTCCTTTGTCCTCAAAAAGCAGGACACATTTA
1 TT-TTCCTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTA
* * * **
3247276 TTTTCCTTTTTCCTTTGTCTTCAAAGGGCATGATGCATTT-
1 TTTTCCTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTA
* * * *
3247316 TATTTCCTTTTTCCTTAGTCCCCAAGGAGCAGGACCCATTTCA
1 T-TTTCCTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTT-A
* *
3247359 TTCTCC-TTTT-CTTTAATCCTCAAAGAGCAGGAC
1 TTTTCCTTTTTCCTTT-GTCCTCAAAGAGCAGGAC
3247392 GCCCCCTTCC
Statistics
Matches: 165, Mismatches: 25, Indels: 28
0.76 0.11 0.13
Matches are distributed among these distances:
40 6 0.04
41 85 0.52
42 34 0.21
43 2 0.01
44 11 0.07
45 1 0.01
46 22 0.13
47 2 0.01
48 2 0.01
ACGTcount: A:0.21, C:0.26, G:0.13, T:0.41
Consensus pattern (41 bp):
TTTTCCTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTA
Found at i:3250423 original size:51 final size:51
Alignment explanation
Indices: 3250347--3250462 Score: 178
Period size: 51 Copynumber: 2.3 Consensus size: 51
3250337 CATTACCGAA
* * *
3250347 GGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTCCACAATCG
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACACAAATTTTCCACAATCG
* * *
3250398 GGGATACTCCAACTCCGATTTTATTTCCAAAACATAAATTTTTCACAATCG
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACACAAATTTTCCACAATCG
3250449 GGGATACTCCAACC
1 GGGATACTCCAACC
3250463 TCGTCATTTC
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.29
Consensus pattern (51 bp):
GGGATACTCCAACCCCGATTTTATTTCCAAAACACAAATTTTCCACAATCG
Found at i:3250551 original size:51 final size:51
Alignment explanation
Indices: 3250478--3250595 Score: 166
Period size: 51 Copynumber: 2.3 Consensus size: 51
3250468 ATTTCTGAGG
* * *
3250478 GGATACTCCAACCCTGGTTTTATTTCTAAAACACCAATTTTTCACAATTGA
1 GGATACTCCAACCCTGATTTTATTTCCAAAACACCAATTTTTCACAATCGA
* * *
3250529 GGATACTCCAA-CTTCGATTTTATTTCCAAAATACCAATTTTTCACAATCGG
1 GGATACTCCAACCCT-GATTTTATTTCCAAAACACCAATTTTTCACAATCGA
3250580 GGATACTCCAACCCTG
1 GGATACTCCAACCCTG
3250596 TTATTTCATC
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
50 2 0.03
51 54 0.93
52 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (51 bp):
GGATACTCCAACCCTGATTTTATTTCCAAAACACCAATTTTTCACAATCGA
Found at i:3250551 original size:130 final size:129
Alignment explanation
Indices: 3250318--3250623 Score: 452
Period size: 130 Copynumber: 2.3 Consensus size: 129
3250308 TTTTCATCTT
* * *
3250318 GGGGATACTCCAACCCCGTCATTACCGAAGGGATACTCCAACCCCGGTTTTATTTCTAAAACACC
1 GGGGATACTCCAA-CCCGTCATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACC
* *
3250383 AATTTTCCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATAAATTTTTCACAATC
65 AATTTTCCACAATCGAGGATACTCCAACTCCGATTTTATTTCCAAAACACAAATTTTTCACAATC
*
3250448 GGGGATACTCCAACCTCGTCATTTCTGAGGGGATACTCCAACCCTGGTTTTATTTCTAAAACACC
1 GGGGATACTCCAACC-CGTCATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACC
* * * * *
3250513 AATTTTTCACAATTGAGGATACTCCAACTTCGATTTTATTTCCAAAATACCAATTTTTCACAATC
65 AATTTTCCACAATCGAGGATACTCCAACTCCGATTTTATTTCCAAAACACAAATTTTTCACAATC
* *
3250578 GGGGATACTCCAACCCTGTTATTTCAT-CGGGGATACTCCAACCCCG
1 GGGGATACTCCAACCC-GTCATTTC-TGAGGGGATACTCCAACCCCG
3250624 TTATTTTCGA
Statistics
Matches: 159, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
129 3 0.02
130 155 0.97
131 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (129 bp):
GGGGATACTCCAACCCGTCATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCA
ATTTTCCACAATCGAGGATACTCCAACTCCGATTTTATTTCCAAAACACAAATTTTTCACAATC
Found at i:3250607 original size:28 final size:28
Alignment explanation
Indices: 3250575--3250629 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
3250565 ATTTTTCACA
*
3250575 ATCGGGGATACTCCAACCCTGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
3250603 ATCGGGGATACTCCAACCCCGTTATTT
1 ATCGGGGATACTCCAACCCCGTTATTT
3250630 TCGAAGGGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.31
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATTTC
Found at i:3250638 original size:28 final size:27
Alignment explanation
Indices: 3250575--3250647 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 27
3250565 ATTTTTCACA
*
3250575 ATCGGGGATACTCCAACCCTGTTATTT
1 ATCGGGGATACTCCAACCCCGTTATTT
3250602 CATCGGGGATACTCCAACCCCGTTATTT
1 -ATCGGGGATACTCCAACCCCGTTATTT
*
3250630 -TCGAAGGGACACTCCAAC
1 ATCG--GGGATACTCCAAC
3250648 TTCGGCTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
26 3 0.07
28 38 0.93
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTATTT
Found at i:3250667 original size:107 final size:107
Alignment explanation
Indices: 3250533--3250729 Score: 265
Period size: 107 Copynumber: 1.8 Consensus size: 107
3250523 AATTGAGGAT
* *
3250533 ACTCCAACTTCGATTTTATTTCCAAAATACCAATTTTTCACAATCGGGGATACTCCAACC-CTGT
1 ACTCCAACTTCGACTTTATTTCCAAAATACCAATTTCTCACAATCGGGGATACTCCAACCTC-GT
3250597 TATTTCATCG-GG-GATACTCCAACCCCGTTATTTTCGAAGGGAC
65 TATTT--TCGTGGTGATACTCCAACCCCGTTATTTTCGAAGGGAC
* * *** *
3250640 ACTCCAACTTCGGCTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATATTCCAACCTCGTT
1 ACTCCAACTTCGACTTTATTTCCAAAATACCAATTTCTCACAATCGGGGATACTCCAACCTCGTT
*
3250705 ATTTTCGTGGTGATACTCTAACCCC
66 ATTTTCGTGGTGATACTCCAACCCC
3250730 AGCCTTATTT
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
105 3 0.04
106 2 0.03
107 72 0.92
108 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.34
Consensus pattern (107 bp):
ACTCCAACTTCGACTTTATTTCCAAAATACCAATTTCTCACAATCGGGGATACTCCAACCTCGTT
ATTTTCGTGGTGATACTCCAACCCCGTTATTTTCGAAGGGAC
Found at i:3250686 original size:79 final size:79
Alignment explanation
Indices: 3250603--3250862 Score: 240
Period size: 79 Copynumber: 3.3 Consensus size: 79
3250593 CTGTTATTTC
** * *
3250603 ATCGGGGATACTCCAACCCCGTTATTTTCGAAGG-GACACTCCAACTTCGGCTTTATTTCTAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTTCG-AGGTGACACTCCAACCCCAGCCTTATTTCTAAAA
* *
3250667 TATTGA-TTTCTCACA
65 CATCGATTTTC-CACA
* * * * * *
3250682 ATCGGGGATATTCCAACCTCGTTATTTTCGTGGTGATACTCTAACCCCAGCCTTATTTCTAAAGC
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGTGACACTCCAACCCCAGCCTTATTTCTAAAAC
3250747 ATCGATTTTCCACA
66 ATCGATTTTCCACA
* * * * * ** *
3250761 ATCGGAGATACTCCAACCCCGTTATTTTTGAGGGGATACTCTAACCCC-GATTTTATTT-TCAGA
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGTGACACTCCAACCCCAG-CCTTATTTCT-AAA
* *
3250824 ACACCGATTTTCCATA
64 ACATCGATTTTCCACA
* *
3250840 ATCGAGGATACTCCAGCCCCGTT
1 ATCGGGGATACTCCAACCCCGTT
3250863 GTTATCCCCA
Statistics
Matches: 150, Mismatches: 27, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
78 4 0.03
79 142 0.95
80 4 0.03
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTTCGAGGTGACACTCCAACCCCAGCCTTATTTCTAAAAC
ATCGATTTTCCACA
Found at i:3252363 original size:13 final size:13
Alignment explanation
Indices: 3252345--3252375 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
3252335 TGATGCATGG
3252345 TACATTGTAGCGA
1 TACATTGTAGCGA
*
3252358 TACATTGTATCGA
1 TACATTGTAGCGA
3252371 TACAT
1 TACAT
3252376 GATGAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (13 bp):
TACATTGTAGCGA
Found at i:3260553 original size:28 final size:28
Alignment explanation
Indices: 3260504--3260564 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
3260494 GAGAGTTGAT
* *
3260504 CACTTCACTTTCATAGCACATGAATGAG
1 CACTTCACTCTCACAGCACATGAATGAG
* * *
3260532 CACTTCACTCTCGCAGCGCATGGATGAG
1 CACTTCACTCTCACAGCACATGAATGAG
3260560 CACTT
1 CACTT
3260565 TAGTGCACTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (28 bp):
CACTTCACTCTCACAGCACATGAATGAG
Found at i:3278280 original size:32 final size:32
Alignment explanation
Indices: 3278241--3278331 Score: 155
Period size: 32 Copynumber: 2.8 Consensus size: 32
3278231 ATTTCTACAA
* *
3278241 TTTGTATCAATACAATGTATGGATACATAAGT
1 TTTGTATCGATACAATGTATCGATACATAAGT
*
3278273 TTTGTATCGATACATTGTATCGATACATAAGT
1 TTTGTATCGATACAATGTATCGATACATAAGT
3278305 TTTGTATCGATACAATGTATCGATACA
1 TTTGTATCGATACAATGTATCGATACA
3278332 AAACTACTCT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 55 1.00
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.38
Consensus pattern (32 bp):
TTTGTATCGATACAATGTATCGATACATAAGT
Found at i:3278284 original size:19 final size:19
Alignment explanation
Indices: 3278256--3278318 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
3278246 ATCAATACAA
*
3278256 TGTATGGATACATAAGTTT
1 TGTATCGATACATAAGTTT
3278275 TGTATCGATAC---A---T
1 TGTATCGATACATAAGTTT
3278288 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTTT
3278307 TGTATCGATACA
1 TGTATCGATACA
3278319 ATGTATCGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 12 0.32
16 2 0.05
19 23 0.62
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATAAGTTT
Found at i:3278292 original size:13 final size:13
Alignment explanation
Indices: 3278274--3278300 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3278264 TACATAAGTT
3278274 TTGTATCGATACA
1 TTGTATCGATACA
3278287 TTGTATCGATACA
1 TTGTATCGATACA
3278300 T
1 T
3278301 AAGTTTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3278325 original size:13 final size:13
Alignment explanation
Indices: 3278307--3278332 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3278297 ACATAAGTTT
3278307 TGTATCGATACAA
1 TGTATCGATACAA
3278320 TGTATCGATACAA
1 TGTATCGATACAA
3278333 AACTACTCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3280863 original size:13 final size:13
Alignment explanation
Indices: 3280845--3280870 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3280835 CATTATTCAA
3280845 TGTATCGATACAT
1 TGTATCGATACAT
3280858 TGTATCGATACAT
1 TGTATCGATACAT
3280871 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3295810 original size:8 final size:8
Alignment explanation
Indices: 3295797--3295863 Score: 91
Period size: 8 Copynumber: 8.2 Consensus size: 8
3295787 GTGACAAAAA
3295797 AAACAAAC
1 AAACAAAC
3295805 AAACAAAC
1 AAACAAAC
3295813 AAACAAAC
1 AAACAAAC
*
3295821 AAAAAAAC
1 AAACAAAC
3295829 AAAACAAAAC
1 -AAAC-AAAC
3295839 AAACAAAC
1 AAACAAAC
3295847 AAACAAA-
1 AAACAAAC
*
3295854 AAAAAAAC
1 AAACAAAC
3295862 AA
1 AA
3295864 TAACAACAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
7 6 0.11
8 36 0.68
9 7 0.13
10 4 0.08
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (8 bp):
AAACAAAC
Found at i:3295844 original size:34 final size:33
Alignment explanation
Indices: 3295792--3295869 Score: 124
Period size: 34 Copynumber: 2.4 Consensus size: 33
3295782 AAAAAGTGAC
3295792 AAAA-AAAAC-AAACAAACAAACAAACAAACAAA
1 AAAACAAAACAAAACAAACAAACAAACAAA-AAA
3295824 AAAACAAAACAAAACAAACAAACAAACAAAAAA
1 AAAACAAAACAAAACAAACAAACAAACAAAAAA
3295857 AAAACAATAACAA
1 AAAACAA-AACAA
3295870 CAAAAAGGGT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
32 4 0.09
33 15 0.35
34 24 0.56
ACGTcount: A:0.81, C:0.18, G:0.00, T:0.01
Consensus pattern (33 bp):
AAAACAAAACAAAACAAACAAACAAACAAAAAA
Found at i:3295872 original size:42 final size:42
Alignment explanation
Indices: 3295790--3295874 Score: 127
Period size: 42 Copynumber: 2.0 Consensus size: 42
3295780 AAAAAAAGTG
*
3295790 ACAAAAAAAACAAACAAACAAACAAACAAACAAAAAAACAAA
1 ACAAAAAAAACAAACAAACAAACAAAAAAACAAAAAAACAAA
* *
3295832 ACAAAACAAACAAACAAACAAA-AAAAAAACAATAACAACAAA
1 ACAAAAAAAACAAACAAACAAACAAAAAAACAA-AAAAACAAA
3295874 A
1 A
3295875 AGGGTCCGGA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
41 9 0.23
42 30 0.77
ACGTcount: A:0.80, C:0.19, G:0.00, T:0.01
Consensus pattern (42 bp):
ACAAAAAAAACAAACAAACAAACAAAAAAACAAAAAAACAAA
Found at i:3299924 original size:52 final size:52
Alignment explanation
Indices: 3299791--3299931 Score: 230
Period size: 52 Copynumber: 2.7 Consensus size: 52
3299781 TGAAAAGTTA
3299791 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
3299843 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
**
3299895 CTGCATGTATCGATACA-AAAATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTTAAT-AGTGTATCGATACA
3299932 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:3299938 original size:13 final size:13
Alignment explanation
Indices: 3299920--3299944 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3299910 CAAAAATCAG
3299920 TGTATCGATACAA
1 TGTATCGATACAA
3299933 TGTATCGATACA
1 TGTATCGATACA
3299945 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3300134 original size:21 final size:21
Alignment explanation
Indices: 3300093--3300134 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
3300083 GTTGGGACCT
*
3300093 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
3300114 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
3300135 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:3301018 original size:171 final size:168
Alignment explanation
Indices: 3300823--3301207 Score: 611
Period size: 171 Copynumber: 2.3 Consensus size: 168
3300813 TTTTAGAGAT
3300823 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
1 GATGAA-GTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
3300888 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
65 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
* *
3300953 TGTCAACGTGCTGATTCAAGGCCAGC-TACATTGAACT-TAAA
130 TGTCAACGTGCTGATTCAAGGCCAGCTTA-A-AG-A-TGGAAA
* * *
3300994 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAAA
1 GATGAAG-TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
*
3301059 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGA
65 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
3301124 TGTCAACGTGCTGATTCAAGGCCAGCTTAAAGATGGAAA
130 TGTCAACGTGCTGATTCAAGGCCAGCTTAAAGATGGAAA
*
3301163 -AT---GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GATGAAGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAG
3301208 GTGCCAATGT
Statistics
Matches: 203, Mismatches: 8, Indels: 13
0.91 0.04 0.06
Matches are distributed among these distances:
164 40 0.20
165 1 0.00
168 3 0.01
169 4 0.02
170 2 0.01
171 151 0.74
172 2 0.01
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (168 bp):
GATGAAGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAAG
TGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGAT
GTCAACGTGCTGATTCAAGGCCAGCTTAAAGATGGAAA
Found at i:3301040 original size:49 final size:49
Alignment explanation
Indices: 3300894--3301052 Score: 147
Period size: 49 Copynumber: 3.1 Consensus size: 49
3300884 AAAAGTGATA
* * * * *
3300894 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G
* ** * * *
3300945 AAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG
1 ---AA-GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
3300998 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
3301047 ATGATG
1 AAGATG
3301053 AGAAAAGTGA
Statistics
Matches: 85, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
49 45 0.53
50 2 0.02
53 1 0.01
54 2 0.02
55 35 0.41
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.25
Consensus pattern (49 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
Found at i:3301155 original size:45 final size:42
Alignment explanation
Indices: 3301103--3301235 Score: 117
Period size: 43 Copynumber: 3.1 Consensus size: 42
3301093 ACGATATTGG
* *
3301103 GCTTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAGGCCA
1 GCTTAAAGATG-G-AAAAGG-TGCCAACATGCTGATTCAAGGCCA
* *
3301148 GCTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAGGCCA
1 GCTTAAAGATGGAAAAGGTGCCAACATGCTGATTCAAGGCCA
* * ** *
3301190 GC-TATA-TTGGACTTAAAGGTGCCAATGTGCTAATTCAAGGCCA
1 GCTTAAAGATGGA---AAAGGTGCCAACATGCTGATTCAAGGCCA
3301233 GCT
1 GCT
3301236 ACATTGGACT
Statistics
Matches: 75, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
40 4 0.05
41 3 0.04
42 23 0.31
43 33 0.44
44 1 0.01
45 11 0.15
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (42 bp):
GCTTAAAGATGGAAAAGGTGCCAACATGCTGATTCAAGGCCA
Found at i:3301184 original size:42 final size:42
Alignment explanation
Indices: 3301132--3301235 Score: 122
Period size: 43 Copynumber: 2.5 Consensus size: 42
3301122 GATGTCAACG
*
3301132 TGCTGATTCAAGGCCAGCTTAAAGATGGA-AAATGTGCCAATA
1 TGCTGATTCAAGGCCAGCTTAAA-ATGGATAAAGGTGCCAATA
* * *
3301174 TGCTGATTCAAGGCCAGC-TATATTGGACTTAAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTTAAAATGGA--TAAAGGTGCCAATA
*
3301217 TGCTAATTCAAGGCCAGCT
1 TGCTGATTCAAGGCCAGCT
3301236 ACATTGGACT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
40 4 0.08
41 3 0.06
42 18 0.34
43 28 0.53
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (42 bp):
TGCTGATTCAAGGCCAGCTTAAAATGGATAAAGGTGCCAATA
Found at i:3301264 original size:49 final size:49
Alignment explanation
Indices: 3301166--3301547 Score: 542
Period size: 49 Copynumber: 7.9 Consensus size: 49
3301156 ATGGAAAATG
*
3301166 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G--G-
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
* *
3301209 TGCCAATGTGCTAATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
* * * *
3301258 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
* *
3301307 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
* * *
3301356 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
* *
3301405 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
* * * *
3301454 TGCCAATATGCTGATTCTAGGCCAGCGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
* *
3301503 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
3301548 GAAAAGGCCA
Statistics
Matches: 297, Mismatches: 36, Indels: 6
0.88 0.11 0.02
Matches are distributed among these distances:
43 35 0.12
44 2 0.01
45 1 0.00
46 1 0.00
48 1 0.00
49 257 0.87
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
Found at i:3301349 original size:98 final size:98
Alignment explanation
Indices: 3301166--3301547 Score: 677
Period size: 98 Copynumber: 4.0 Consensus size: 98
3301156 ATGGAAAATG
* * *
3301166 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATGTGCTAATT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
3301225 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
*
3301258 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
3301323 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
3301356 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
3301421 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
*
3301454 TGCCAATATGCTGATTCTAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
3301519 CAAGGCCAGCTACATTGGACTTAAAGATG
66 CAAGGCCAGCTACATTGGACTTAAAGATG
3301548 GAAAAGGCCA
Statistics
Matches: 278, Mismatches: 6, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
92 37 0.13
98 241 0.87
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (98 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
Found at i:3301616 original size:33 final size:34
Alignment explanation
Indices: 3301577--3301641 Score: 123
Period size: 33 Copynumber: 1.9 Consensus size: 34
3301567 GGCTTAGAGG
3301577 GGTTGCCACCGACTTGTGTGGGCTTT-GGAAGAA
1 GGTTGCCACCGACTTGTGTGGGCTTTAGGAAGAA
3301610 GGTTGCCACCGACTTGTGTGGGCTTTAGGAAG
1 GGTTGCCACCGACTTGTGTGGGCTTTAGGAAG
3301642 GGAGAAAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 26 0.84
34 5 0.16
ACGTcount: A:0.17, C:0.18, G:0.37, T:0.28
Consensus pattern (34 bp):
GGTTGCCACCGACTTGTGTGGGCTTTAGGAAGAA
Found at i:3301696 original size:35 final size:34
Alignment explanation
Indices: 3301626--3301949 Score: 420
Period size: 34 Copynumber: 9.3 Consensus size: 34
3301616 CACCGACTTG
* * *
3301626 TGTGGGCTTTAGGAAGGGAGAAAGATGCCACGGAGT
1 TGTGGGCTTTA--AAAGGAAAAAGGTGCCACGGAGT
*
3301662 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAA-GGAAAAAG-GTGCCACGGAGT
* *
3301697 TGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
*
3301731 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
3301765 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAA-GGAAAAAG-GTGCCACGGAGT
* *
3301802 TGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGT
1 TGTGGGCTTTAAAAGGAAAAAG-GTGCCACGGAGT
*
3301837 GGTGGGCTTTAAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAA-GGAAAAAG-GTGCCACGGAGT
*
3301874 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
*
3301908 TGTGGGCTTT-AAAGG-AAAAGGTGCCACGAAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
3301940 TGTGGGCTTT
1 TGTGGGCTTT
3301950 GAAGAAAAAA
Statistics
Matches: 260, Mismatches: 20, Indels: 20
0.87 0.07 0.07
Matches are distributed among these distances:
32 26 0.10
33 6 0.02
34 84 0.32
35 64 0.25
36 31 0.12
37 49 0.19
ACGTcount: A:0.33, C:0.11, G:0.35, T:0.21
Consensus pattern (34 bp):
TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
Found at i:3301960 original size:72 final size:71
Alignment explanation
Indices: 3301626--3301949 Score: 452
Period size: 72 Copynumber: 4.6 Consensus size: 71
3301616 CACCGACTTG
* * * *
3301626 TGTGGGCTTTAGGAAGGGAGAAAGA-TGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGC
1 TGTGGGCTTTA-AAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA-AGAAAAAGAGTGC
3301689 CACGGAGT
64 CACGGAGT
* *
3301697 TGTGGGCTTTAAAA-AGAAGAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAG-GTGCCA
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCA
3301759 CGGAGT
66 CGGAGT
*
3301765 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCC
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCC
*
3301830 ACAGAGT
65 ACGGAGT
*
3301837 GGTGGGCTTTAAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAG-GTGCC
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCC
3301901 ACGGAGT
65 ACGGAGT
*
3301908 TGTGGGCTTT-AAA-GG-AAAAG-GTGCCACGAAGTTGTGGGCTTT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
3301950 GAAGAAAAAA
Statistics
Matches: 233, Mismatches: 14, Indels: 17
0.88 0.05 0.06
Matches are distributed among these distances:
66 21 0.09
67 5 0.02
68 24 0.10
69 36 0.15
70 14 0.06
71 65 0.28
72 68 0.29
ACGTcount: A:0.33, C:0.11, G:0.35, T:0.21
Consensus pattern (71 bp):
TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCA
CGGAGT
Found at i:3301982 original size:32 final size:32
Alignment explanation
Indices: 3301854--3302012 Score: 115
Period size: 32 Copynumber: 4.9 Consensus size: 32
3301844 TTTAAAAAGG
* * * *
3301854 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
1 GAAAAA-AGTGCCACTGAGTCGTGGACTTT--GAA
* * * * *
3301889 GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAA
1 GAAAAAAGTGCCACTGAGTCGTGGACTTTGAA
* * * *
3301921 GGAAAAGGTGCCAC-GAAGTTGTGGGCTTTGAA
1 GAAAAAAGTGCCACTG-AGTCGTGGACTTTGAA
*
3301953 GAAAAAAATGCCACTGAGTCGTGGACTTTG-A
1 GAAAAAAGTGCCACTGAGTCGTGGACTTTGAA
* * *
3301984 GAAGAGATTGCCACTGAGTCGTGGACTTT
1 GAAAAAAGTGCCACTGAGTCGTGGACTTT
3302013 AAAAAGGTAT
Statistics
Matches: 111, Mismatches: 11, Indels: 8
0.85 0.08 0.06
Matches are distributed among these distances:
31 28 0.25
32 54 0.49
33 1 0.01
34 22 0.20
35 6 0.05
ACGTcount: A:0.31, C:0.14, G:0.32, T:0.23
Consensus pattern (32 bp):
GAAAAAAGTGCCACTGAGTCGTGGACTTTGAA
Found at i:3302981 original size:13 final size:13
Alignment explanation
Indices: 3302965--3303003 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
3302955 GTTTTTCTTC
3302965 TTTTTTTTTTTGT
1 TTTTTTTTTTTGT
*
3302978 TTTTTTTTTTTGC
1 TTTTTTTTTTTGT
* *
3302991 ATCTTTTTTTTGT
1 TTTTTTTTTTTGT
3303004 GAAGATTAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.03, C:0.05, G:0.08, T:0.85
Consensus pattern (13 bp):
TTTTTTTTTTTGT
Found at i:3303068 original size:15 final size:15
Alignment explanation
Indices: 3303045--3303083 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
3303035 TATCGAGATT
*
3303045 TTCTGTTTTTTTTTC
1 TTCTTTTTTTTTTTC
3303060 TTCTTTTTTTTTTTC
1 TTCTTTTTTTTTTTC
*
3303075 -CCTTTTTTT
1 TTCTTTTTTT
3303084 GTGTTTGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (15 bp):
TTCTTTTTTTTTTTC
Found at i:3310372 original size:52 final size:52
Alignment explanation
Indices: 3310239--3310379 Score: 230
Period size: 52 Copynumber: 2.7 Consensus size: 52
3310229 TGAAAAGTTA
3310239 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
3310291 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
**
3310343 CTGCATGTATCGATACA-AAAATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTTAAT-AGTGTATCGATACA
3310380 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:3310386 original size:13 final size:13
Alignment explanation
Indices: 3310368--3310392 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3310358 CAAAAATCAG
3310368 TGTATCGATACAA
1 TGTATCGATACAA
3310381 TGTATCGATACA
1 TGTATCGATACA
3310393 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3310477 original size:13 final size:13
Alignment explanation
Indices: 3310459--3310483 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3310449 CAAAAAAATA
3310459 TGTATCGATACAT
1 TGTATCGATACAT
3310472 TGTATCGATACA
1 TGTATCGATACA
3310484 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3310479 original size:33 final size:33
Alignment explanation
Indices: 3310437--3310503 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3310427 AGTAGCTTAA
3310437 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
3310470 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
3310503 A
1 A
3310504 AATCATTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:3310582 original size:21 final size:21
Alignment explanation
Indices: 3310541--3310582 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
3310531 GTTGGGACCT
*
3310541 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
3310562 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
3310583 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:3311441 original size:57 final size:56
Alignment explanation
Indices: 3311346--3311532 Score: 225
Period size: 57 Copynumber: 3.3 Consensus size: 56
3311336 CATTCCTTAC
* * ***
3311346 CCTTCAAAAGTCCACAAGTTAGTGGCATATTTTCCAAAGCCCACAAGTCAGTGGCAA
1 CCTTCAAAAGCCCACAAGTCAGTGGCACCCTTT-CAAAGCCCACAAGTCAGTGGCAA
* *
3311403 CCTTCAAAAGCCCACAAGTCGGTGGCACCCCTTTCAAAGCCCACAAGTCGGTGGC-A
1 CCTTCAAAAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCAA
* *
3311459 CCTTTTC-AAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCAA
1 CC--TTCAAAAGCCCACAAGTCAGTGGCACCCTTTC-AAAGCCCACAAGTCAGTGGCAA
*
3311517 CCTTCAAAAACCCACA
1 CCTTCAAAAGCCCACA
3311533 CAAGTTGGTG
Statistics
Matches: 112, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
56 11 0.10
57 92 0.82
58 9 0.08
ACGTcount: A:0.32, C:0.32, G:0.17, T:0.20
Consensus pattern (56 bp):
CCTTCAAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAA
Found at i:3311526 original size:29 final size:28
Alignment explanation
Indices: 3311346--3311532 Score: 200
Period size: 29 Copynumber: 6.6 Consensus size: 28
3311336 CATTCCTTAC
* *
3311346 CCTTCAAAAGTCCACAAGTTAGTGGCATA
1 CCTTCAAAAGCCCACAAGTCAGTGGCA-A
** *
3311375 TTTTCCAAAGCCCACAAGTCAGTGGCAA
1 CCTTCAAAAGCCCACAAGTCAGTGGCAA
* *
3311403 CCTTCAAAAGCCCACAAGTCGGTGGCACC
1 CCTTCAAAAGCCCACAAGTCAGTGGCA-A
*
3311432 CCTTTC-AAAGCCCACAAGTCGGTGGC-A
1 CC-TTCAAAAGCCCACAAGTCAGTGGCAA
*
3311459 CCTTTTC-AAAGCCCACAAGTCAGTGGCAT
1 CC--TTCAAAAGCCCACAAGTCAGTGGCAA
*
3311488 CTTTTCAAAAGCCCACAAGTCAGTGGCAA
1 C-CTTCAAAAGCCCACAAGTCAGTGGCAA
*
3311517 CCTTCAAAAACCCACA
1 CCTTCAAAAGCCCACA
3311533 CAAGTTGGTG
Statistics
Matches: 135, Mismatches: 17, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
27 2 0.01
28 63 0.47
29 67 0.50
30 3 0.02
ACGTcount: A:0.32, C:0.32, G:0.17, T:0.20
Consensus pattern (28 bp):
CCTTCAAAAGCCCACAAGTCAGTGGCAA
Found at i:3311606 original size:43 final size:43
Alignment explanation
Indices: 3311554--3312148 Score: 355
Period size: 49 Copynumber: 13.1 Consensus size: 43
3311544 CATCTACTTC
* *
3311554 TAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
3311597 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * * **
3311640 TAAGTCCAATGTC-TTCGGCCTTAAATTAGCGCATTGGCATCTTCATCTT
1 TAAGTCCAATGTCGCT-GGCCTTGAATCAGCATATTGGCA----C--CTT
*
3311689 TAAGTCCAATGTCACTGGCCTTGAATCAGCATATTGGCACCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * * *
3311732 TAAGTCCAATGTCGCCGACCTTGAATCAACACATTGGCATCTTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA----C--CTT
** *
3311781 TAAGTCCTGTATCGCTGGCCTTGAATCAGCATATTGGCACCGGCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA----C--CTT
* * *
3311830 TAAGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCA----
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * *
3311869 TAAG-CCTAATATCGCTGGCTTTGAATCGGCATATTGGCACCTTGCCTT
1 TAAGTCC-AATGTCGCTGGCCTTGAATCAGCATATTGGCA-----CCTT
* * ** *
3311917 TAAGACCAATGCCATTGGCCTTGAATTAGCATATTGGCA-C--
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* *
3311957 -AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA----C--CTT
* * * *
3312005 TAAGTCCGATATTGCTGGCCTTAAATCAGCATATTGGCACCGTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA----C--CTT
** **
3312054 TAAAACCAATGTCGCTGGCCTTGAATCAGCGCATTGGCATCTTTATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-C-----CTT
*** * * *
3312103 TAAGTTTGATATCGTTGGCCTTGAATCAGCATATTGGCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
3312146 TAA
1 TAA
3312149 CATCCCTAAG
Statistics
Matches: 440, Mismatches: 74, Indels: 76
0.75 0.13 0.13
Matches are distributed among these distances:
38 2 0.00
39 63 0.14
42 2 0.00
43 116 0.26
45 1 0.00
46 3 0.01
47 2 0.00
48 29 0.07
49 221 0.50
50 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (43 bp):
TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
Found at i:3311709 original size:49 final size:49
Alignment explanation
Indices: 3311637--3312246 Score: 366
Period size: 49 Copynumber: 13.0 Consensus size: 49
3311627 ATATTGGCAC
* * * *
3311637 CTTTAAGTCCAATGTC-TTCGGCCTTAAATTAGCGCATTGGCATCTTCAT
1 CTTTAAGTCCAATGTCGCT-GGCCTTGAATCAGCACATTGGCATCTTCAT
* *
3311686 CTTTAAGTCCAATGTCACTGGCCTTGAATCAGCATATTGGCA----C--
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCAT
* * *
3311729 CTTTAAGTCCAATGTCGCCGACCTTGAATCAACACATTGGCATCTTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCAT
** * * * **
3311778 CTTTAAGTCCTGTATCGCTGGCCTTGAATCAGCATATTGGCACCGGCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCAT
* *
3311827 CTTTAAGACCAATGTTGCTGGCCTTGAATCAGCACATTGG------CA-
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCAT
* * * * *
3311869 ---TAAG-CCTAATATCGCTGGCTTTGAATCGGCATATTGGCACCTTGC--
1 CTTTAAGTCC-AATGTCGCTGGCCTTGAATCAGCACATTGGCATCTT-CAT
* * ** * *
3311914 CTTTAAGACCAATGCCATTGGCCTTGAATTAGCATATTGG------CA-
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCAT
* * * *
3311956 C---AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCAT
* * * * * * *
3312002 CTTTAAGTCCGATATTGCTGGCCTTAAATCAGCATATTGGCACCGTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCAT
** * *
3312051 CTTTAAAACCAATGTCGCTGGCCTTGAATCAGCGCATTGGCATCTTTAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCAT
*** * * *
3312100 CTTTAAGTTTGATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATC-TT--CAT
** * * ** * * *
3312152 CCCTAAGCCCAATGTCACTGGCCTTGTCTCAACATATTGGCA--TTCTT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCAT
* * * *
3312199 CTTCAAGTCTAATGTCGCTGGCCTTGAACCAGCACATTGTCATTCTTC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-TCTTC
3312247 GCATCTTCGA
Statistics
Matches: 430, Mismatches: 95, Indels: 71
0.72 0.16 0.12
Matches are distributed among these distances:
38 2 0.00
39 59 0.14
41 1 0.00
42 1 0.00
43 39 0.09
45 3 0.01
46 2 0.00
47 33 0.08
48 27 0.06
49 225 0.52
50 6 0.01
52 32 0.07
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCAT
Found at i:3311713 original size:92 final size:92
Alignment explanation
Indices: 3311594--3311821 Score: 357
Period size: 92 Copynumber: 2.5 Consensus size: 92
3311584 ATATTGGCAC
** *
3311594 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCTTCGGC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCGCCGAC
* * *
3311659 CTTAAATTAGCGCATTGGCATCTTCAT
66 CTTAAATCAACACATTGGCATCTTCAT
*
3311686 CTTTAAGTCCAATGTCACTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCGCCGAC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCGCCGAC
*
3311751 CTTGAATCAACACATTGGCATCTTCAT
66 CTTAAATCAACACATTGGCATCTTCAT
** *
3311778 CTTTAAGTCCTGTATCGCTGGCCTTGAATCAGCATATTGGCACC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC
3311822 GGCATCTTTA
Statistics
Matches: 124, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
92 124 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (92 bp):
CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCGCCGAC
CTTAAATCAACACATTGGCATCTTCAT
Found at i:3311886 original size:39 final size:39
Alignment explanation
Indices: 3311843--3311994 Score: 126
Period size: 39 Copynumber: 3.7 Consensus size: 39
3311833 GACCAATGTT
*
3311843 GCTGGCCTTGAATCAGCACATTGGCATAAGCCTAATATC
1 GCTGGCCTTGAATCAGCATATTGGCATAAGCCTAATATC
* * * * *
3311882 GCTGGCTTTGAATCGGCATATTGGCACCT-TGCCTTTAAGACC
1 GCTGGCCTTGAATCAGCATATTGGCA--TAAGCC--TAATATC
* * *
3311924 AATGCCATTGGCCTTGAATTAGCATATTGGCACAAGCCCAATATC
1 ---G-C--TGGCCTTGAATCAGCATATTGGCATAAGCCTAATATC
3311969 GCTGGCCTTGAATCAGCATATTGGCA
1 GCTGGCCTTGAATCAGCATATTGGCA
3311995 CCTTCATCTT
Statistics
Matches: 87, Mismatches: 15, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
39 46 0.53
40 3 0.03
41 2 0.02
42 6 0.07
45 5 0.06
46 1 0.01
47 3 0.03
48 21 0.24
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.28
Consensus pattern (39 bp):
GCTGGCCTTGAATCAGCATATTGGCATAAGCCTAATATC
Found at i:3311906 original size:88 final size:88
Alignment explanation
Indices: 3311790--3312044 Score: 343
Period size: 87 Copynumber: 2.9 Consensus size: 88
3311780 TTAAGTCCTG
*
3311790 TATCGCTGGCCTTGAATCAGCATATTGGCACCGGCATCTTTAAGACCAATGTTGCTGGCCTTGAA
1 TATCGCTGGCCTTGAATCAGCATATTGGCACCTGCATCTTTAAGACCAATGTTGCTGGCCTTGAA
* * *
3311855 TCAGCACATTGGCATAAGCCTAA
66 TCAGCATATTGGCACAAGCCCAA
* * ****
3311878 TATCGCTGGCTTTGAATCGGCATATTGGCACCTTGC--CTTTAAGACCAATGCCATTGGCCTTGA
1 TATCGCTGGCCTTGAATCAGCATATTGGCACC-TGCATCTTTAAGACCAATGTTGCTGGCCTTGA
*
3311941 ATTAGCATATTGGCACAAGCCCAA
65 ATCAGCATATTGGCACAAGCCCAA
* * * * *
3311965 TATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCGATATTGCTGGCCTTAAA
1 TATCGCTGGCCTTGAATCAGCATATTGGCACCTGCATCTTTAAGACCAATGTTGCTGGCCTTGAA
3312030 TCAGCATATTGGCAC
66 TCAGCATATTGGCAC
3312045 CGTCATCTTT
Statistics
Matches: 141, Mismatches: 23, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
86 2 0.01
87 73 0.52
88 64 0.45
89 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (88 bp):
TATCGCTGGCCTTGAATCAGCATATTGGCACCTGCATCTTTAAGACCAATGTTGCTGGCCTTGAA
TCAGCATATTGGCACAAGCCCAA
Found at i:3312024 original size:224 final size:226
Alignment explanation
Indices: 3311554--3312093 Score: 618
Period size: 224 Copynumber: 2.4 Consensus size: 226
3311544 CATCTACTTC
** **
3311554 TAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCA----C--CTTTAAGTCCAATGTCGCT
1 TAAGTCCTGTATCGCTGGCCTTAAATCAGCATATTGGCACCGGCATCTTTAAAACCAATGTCGCT
* * * * * ** **
3311613 GGCCTTGAATCAGCATATTGGCACCTTTAAGTCC-AATGTC-TTCGGCCTTAAATTAGCGCATTG
66 GGCCTTGAATCAGCACATTGGCA----TAAG-CCTAATATCGCT-GGCTTTGAATCGGCATATTG
* * * *
3311676 GCATCTT-CATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCA
125 GCACCTTGC--CTTTAAGACCAATGCCACTGGCCTTGAATCAGCATATTGGCACC--TAAGCCCA
* *
3311740 ATGTCGCCGACCTTGAATCAACACATTGGCATCTTCATCTT
186 ATATCGCCGACCTTGAATCAACACATTGGCACCTTCATCTT
* * *
3311781 TAAGTCCTGTATCGCTGGCCTTGAATCAGCATATTGGCACCGGCATCTTTAAGACCAATGTTGCT
1 TAAGTCCTGTATCGCTGGCCTTAAATCAGCATATTGGCACCGGCATCTTTAAAACCAATGTCGCT
3311846 GGCCTTGAATCAGCACATTGGCATAAGCCTAATATCGCTGGCTTTGAATCGGCATATTGGCACCT
66 GGCCTTGAATCAGCACATTGGCATAAGCCTAATATCGCTGGCTTTGAATCGGCATATTGGCACCT
* * * *
3311911 TGCCTTTAAGACCAATGCCATTGGCCTTGAATTAGCATATTGGCA-C-AAGCCCAATATCGCTGG
131 TGCCTTTAAGACCAATGCCACTGGCCTTGAATCAGCATATTGGCACCTAAGCCCAATATCGCCGA
* *
3311974 CCTTGAATCAGCATATTGGCACCTTCATCTT
196 CCTTGAATCAACACATTGGCACCTTCATCTT
* *
3312005 TAAGTCC-GATATTGCTGGCCTTAAATCAGCATATTGGCACCGTCATCTTTAAAACCAATGTCGC
1 TAAGTCCTG-TATCGCTGGCCTTAAATCAGCATATTGGCACCGGCATCTTTAAAACCAATGTCGC
*
3312069 TGGCCTTGAATCAGCGCATTGGCAT
65 TGGCCTTGAATCAGCACATTGGCAT
3312094 CTTTATCTTT
Statistics
Matches: 271, Mismatches: 32, Indels: 23
0.83 0.10 0.07
Matches are distributed among these distances:
223 1 0.00
224 122 0.45
227 37 0.14
228 40 0.15
229 29 0.11
230 2 0.01
231 1 0.00
233 39 0.14
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (226 bp):
TAAGTCCTGTATCGCTGGCCTTAAATCAGCATATTGGCACCGGCATCTTTAAAACCAATGTCGCT
GGCCTTGAATCAGCACATTGGCATAAGCCTAATATCGCTGGCTTTGAATCGGCATATTGGCACCT
TGCCTTTAAGACCAATGCCACTGGCCTTGAATCAGCATATTGGCACCTAAGCCCAATATCGCCGA
CCTTGAATCAACACATTGGCACCTTCATCTT
Found at i:3328058 original size:12 final size:11
Alignment explanation
Indices: 3328039--3328091 Score: 52
Period size: 12 Copynumber: 4.5 Consensus size: 11
3328029 CATCCTTCGT
3328039 AAAAAAACAAA
1 AAAAAAACAAA
3328050 AACAAAAACAAA
1 AA-AAAAACAAA
*
3328062 AAACAAACAAA
1 AAAAAAACAAA
*
3328073 GGGAAAAAACAAA
1 --AAAAAAACAAA
3328086 TAAAAA
1 -AAAAA
3328092 TAGGGAAGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
11 10 0.29
12 15 0.44
13 9 0.26
ACGTcount: A:0.81, C:0.11, G:0.06, T:0.02
Consensus pattern (11 bp):
AAAAAAACAAA
Done.