Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 111 of 120
Found at i:32397492 original size:3 final size:3
Alignment explanation
Indices: 32397484--32397529 Score: 51
Period size: 3 Copynumber: 15.3 Consensus size: 3
32397474 ATAGGATACA
*
32397484 GAT GAT GAT GAT GAT GAT GAGG GA- GAT GAT GAT GAT -ATT GAT GAT
1 GAT GAT GAT GAT GAT GAT GA-T GAT GAT GAT GAT GAT GA-T GAT GAT
32397529 G
1 G
32397530 CCCAAGTTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
2 3 0.08
3 32 0.84
4 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.37, T:0.30
Consensus pattern (3 bp):
GAT
Found at i:32404539 original size:4 final size:4
Alignment explanation
Indices: 32404530--32404571 Score: 75
Period size: 4 Copynumber: 10.5 Consensus size: 4
32404520 TTATTATTCT
*
32404530 CATA CATA CATA CATA CATA CATA CACA CATA CATA CATA CA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CA
32404572 AGTTTCAAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (4 bp):
CATA
Found at i:32406920 original size:31 final size:31
Alignment explanation
Indices: 32406885--32406952 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
32406875 AATCAGATTA
* *
32406885 ATTTATATTTTATATATCATTATATTAAATT
1 ATTTAAATCTTATATATCATTATATTAAATT
* * *
32406916 ATTTAAATCTTATTTATTATTATATTTAATT
1 ATTTAAATCTTATATATCATTATATTAAATT
32406947 -TTTAAA
1 ATTTAAA
32406953 AATATTTTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 6 0.19
31 26 0.81
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (31 bp):
ATTTAAATCTTATATATCATTATATTAAATT
Found at i:32408568 original size:7 final size:7
Alignment explanation
Indices: 32408556--32408598 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
32408546 TAAGCTATGG
32408556 ATTTAAT
1 ATTTAAT
32408563 ATTTAAT
1 ATTTAAT
32408570 ATTTAAT
1 ATTTAAT
32408577 ATTTTAAT
1 A-TTTAAT
*
32408585 -TTTATT
1 ATTTAAT
32408591 AATTTAAT
1 -ATTTAAT
32408599 TTATATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
6 5 0.16
7 15 0.48
8 11 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
ATTTAAT
Found at i:32408583 original size:22 final size:22
Alignment explanation
Indices: 32408557--32408598 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
32408547 AAGCTATGGA
32408557 TTTAATATTTAAT-ATTTAATAT
1 TTTAAT-TTTAATAATTTAATAT
*
32408579 TTTAATTTTATTAATTTAAT
1 TTTAATTTTAATAATTTAAT
32408599 TTATATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTAATTTTAATAATTTAATAT
Found at i:32430888 original size:3 final size:3
Alignment explanation
Indices: 32430880--32430905 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
32430870 CTTAGAATCA
32430880 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
32430906 ATCACTGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:32433988 original size:31 final size:31
Alignment explanation
Indices: 32433953--32434014 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
32433943 ACCCAATACT
*
32433953 TTAAATAAAAACTTTCAAATAGTTCAGTGAC
1 TTAAATAAAAACTTTCAAATAATTCAGTGAC
* *
32433984 TTAAATGAAAACTTTCAAATAATTTAGTGAC
1 TTAAATAAAAACTTTCAAATAATTCAGTGAC
32434015 CATTGTGTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.34
Consensus pattern (31 bp):
TTAAATAAAAACTTTCAAATAATTCAGTGAC
Found at i:32437447 original size:16 final size:16
Alignment explanation
Indices: 32437426--32437457 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
32437416 TATGAATGAG
32437426 AAAAAAGAAAAAGAAA
1 AAAAAAGAAAAAGAAA
*
32437442 AAAAAAGAAAGAGAAA
1 AAAAAAGAAAAAGAAA
32437458 TTGAAAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAAAGAAA
Found at i:32438944 original size:31 final size:29
Alignment explanation
Indices: 32438885--32438967 Score: 78
Period size: 31 Copynumber: 2.8 Consensus size: 29
32438875 AAATAAAAAT
* * *
32438885 TTTCGAATAGTTTAGTAACTTAAATGTAAAC
1 TTTCGAATAGTTAAGTGAC-CAAATGT-AAC
32438916 TTTCGAATAGTTAAGTGACCAAATTGTAAC
1 TTTCGAATAGTTAAGTGACCAAA-TGTAAC
***
32438946 TTT-TTTTAGTTAAGTGACCAAA
1 TTTCGAATAGTTAAGTGACCAAA
32438968 ACGAAAACTT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
29 16 0.36
30 9 0.20
31 20 0.44
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (29 bp):
TTTCGAATAGTTAAGTGACCAAATGTAAC
Found at i:32440504 original size:13 final size:12
Alignment explanation
Indices: 32440471--32440501 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
32440461 GATCGACTTA
*
32440471 TTTAAAATATAT
1 TTTAAAACATAT
32440483 TTTAAAACATAT
1 TTTAAAACATAT
32440495 TTTAAAA
1 TTTAAAA
32440502 ACAATGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (12 bp):
TTTAAAACATAT
Found at i:32446022 original size:11 final size:11
Alignment explanation
Indices: 32446006--32446098 Score: 92
Period size: 11 Copynumber: 8.9 Consensus size: 11
32445996 ATTTTTTTAA
32446006 TTTTAAAATAT
1 TTTTAAAATAT
32446017 TTTTAAAATACT
1 TTTTAAAATA-T
*
32446029 TTTT-TAA-A-
1 TTTTAAAATAT
32446037 TTTTAAAATAT
1 TTTTAAAATAT
32446048 TTTTAAAATAT
1 TTTTAAAATAT
32446059 TTTTAAAATACT
1 TTTTAAAATA-T
**
32446071 TTTTTTAAT-T
1 TTTTAAAATAT
32446081 TTTT--AA-AT
1 TTTTAAAATAT
32446089 TTTTAAAATA
1 TTTTAAAATA
32446099 AATTTTTGGT
Statistics
Matches: 69, Mismatches: 4, Indels: 18
0.76 0.04 0.20
Matches are distributed among these distances:
8 11 0.16
9 2 0.03
10 9 0.13
11 34 0.49
12 13 0.19
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:32446039 original size:31 final size:30
Alignment explanation
Indices: 32445996--32446067 Score: 117
Period size: 31 Copynumber: 2.4 Consensus size: 30
32445986 TATTTATTTA
*
32445996 ATTTTTTTAATTTTAAAATATTTTTAAAAT
1 ATTTTTTAAATTTTAAAATATTTTTAAAAT
32446026 ACTTTTTTAAATTTTAAAATATTTTTAAAAT
1 A-TTTTTTAAATTTTAAAATATTTTTAAAAT
*
32446057 ATTTTTAAAAT
1 ATTTTTTAAAT
32446068 ACTTTTTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
30 10 0.26
31 29 0.74
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (30 bp):
ATTTTTTAAATTTTAAAATATTTTTAAAAT
Found at i:32446057 original size:42 final size:41
Alignment explanation
Indices: 32446006--32446098 Score: 150
Period size: 42 Copynumber: 2.2 Consensus size: 41
32445996 ATTTTTTTAA
32446006 TTTTAAAATATTTTTAAAATACTTTTTTAAATTTTAAAATAT
1 TTTTAAAATATTTTTAAAATACTTTTTTAAATTTTAAAA-AT
* **
32446048 TTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTAAAT
1 TTTTAAAATATTTTTAAAATACTTTTTTAAATTTTAAAAAT
32446089 TTTTAAAATA
1 TTTTAAAATA
32446099 AATTTTTGGT
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
41 12 0.25
42 36 0.75
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (41 bp):
TTTTAAAATATTTTTAAAATACTTTTTTAAATTTTAAAAAT
Found at i:32447432 original size:23 final size:23
Alignment explanation
Indices: 32447401--32447464 Score: 110
Period size: 23 Copynumber: 2.8 Consensus size: 23
32447391 ATTCGAACTC
32447401 ATTCGAGTTGACTCGAATCACTT
1 ATTCGAGTTGACTCGAATCACTT
*
32447424 ATTTGAGTTGACTCGAATCACTT
1 ATTCGAGTTGACTCGAATCACTT
*
32447447 ATTCGAATTGACTCGAAT
1 ATTCGAGTTGACTCGAAT
32447465 AACTCGAATC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (23 bp):
ATTCGAGTTGACTCGAATCACTT
Found at i:32452577 original size:3 final size:3
Alignment explanation
Indices: 32452571--32452635 Score: 55
Period size: 3 Copynumber: 21.7 Consensus size: 3
32452561 TTTTTTCATA
* *
32452571 TAT TAT TAAT TA- TGT TA- TAT TAAT TAT TAC TAT TA- TAT TATT TAT
1 TAT TAT T-AT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TA-T TAT
*
32452616 TAT TAT TGT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
32452636 CTATACCTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
2 5 0.10
3 36 0.72
4 9 0.18
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:32452596 original size:21 final size:20
Alignment explanation
Indices: 32452572--32452632 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 20
32452562 TTTTTCATAT
32452572 ATTATTAATTATGTTATATTA
1 ATTATT-ATTATGTTATATTA
*
32452593 ATTATTACTA--TTATATTA
1 ATTATTATTATGTTATATTA
*
32452611 TTTATTATTATTGTTATTATTA
1 ATTATTATTA-TGTTA-TATTA
32452633 TTACTATACC
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
18 16 0.48
20 3 0.09
21 9 0.27
22 5 0.15
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (20 bp):
ATTATTATTATGTTATATTA
Found at i:32452606 original size:18 final size:18
Alignment explanation
Indices: 32452585--32452639 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
32452575 ATTAATTATG
32452585 TTATATTAATTATTACTA
1 TTATATTAATTATTACTA
* *
32452603 TTATATTATTTATTATTA
1 TTATATTAATTATTACTA
*
32452621 TTGTTATT-ATTATTACTA
1 TT-ATATTAATTATTACTA
32452639 T
1 T
32452640 ACCTATACAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
18 27 0.87
19 4 0.13
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (18 bp):
TTATATTAATTATTACTA
Found at i:32452730 original size:11 final size:12
Alignment explanation
Indices: 32452714--32452745 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
32452704 ATACATATAC
32452714 ATATTTT-TTAT
1 ATATTTTATTAT
32452725 ATATTTTATTAT
1 ATATTTTATTAT
32452737 -TATTTTATT
1 ATATTTTATT
32452746 TTCCGCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
ATATTTTATTAT
Found at i:32453288 original size:10 final size:11
Alignment explanation
Indices: 32453261--32453285 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
32453251 AAAACCATTT
32453261 TTTTCAAAGGC
1 TTTTCAAAGGC
32453272 TTTTCAAAGGC
1 TTTTCAAAGGC
32453283 TTT
1 TTT
32453286 CAAGATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (11 bp):
TTTTCAAAGGC
Found at i:32453634 original size:11 final size:11
Alignment explanation
Indices: 32453620--32453692 Score: 73
Period size: 11 Copynumber: 6.8 Consensus size: 11
32453610 AGTTTTTTTT
32453620 AATATTTTTAA
1 AATATTTTTAA
32453631 AATACTTTTT--
1 AATA-TTTTTAA
32453641 AA-A-TTTTAA
1 AATATTTTTAA
*
32453650 AATATTTTAAA
1 AATATTTTTAA
*
32453661 AATATTTTAAA
1 AATATTTTTAA
*
32453672 AATATTTTAAA
1 AATATTTTTAA
32453683 AATACTTTTT
1 AATA-TTTTT
32453693 TAATTTTTAA
Statistics
Matches: 54, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
7 4 0.07
9 3 0.06
10 3 0.06
11 35 0.65
12 9 0.17
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.51
Consensus pattern (11 bp):
AATATTTTTAA
Found at i:32455287 original size:16 final size:16
Alignment explanation
Indices: 32455243--32455292 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
32455233 CTTAAAATGG
32455243 TAAAATTTT-AATTTA
1 TAAAATTTTAAATTTA
* *
32455258 -GACATTTTATAATTTA
1 TAAAATTTTA-AATTTA
*
32455274 TAAAATTTTAAATTAA
1 TAAAATTTTAAATTTA
32455290 TAA
1 TAA
32455293 TGATAAAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
14 6 0.22
16 14 0.52
17 7 0.26
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (16 bp):
TAAAATTTTAAATTTA
Found at i:32458749 original size:22 final size:22
Alignment explanation
Indices: 32458699--32458755 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
32458689 GCCCATATCA
* *
32458699 AATATATATATTTAATATATAT
1 AATATATATATTTAATAAAAAT
*
32458721 AATATATATATTTGACTAAAAAT
1 AATATATATATTT-AATAAAAAT
32458744 AAATATATATAT
1 -AATATATATAT
32458756 ATGTGATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
22 13 0.43
23 6 0.20
24 11 0.37
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
AATATATATATTTAATAAAAAT
Found at i:32458751 original size:26 final size:26
Alignment explanation
Indices: 32458722--32458772 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
32458712 AATATATATA
*
32458722 ATATATATATTTGACTAAAAATAAAT
1 ATATATATATGTGACTAAAAATAAAT
*
32458748 ATATATATATGTGATTAAAAATAAA
1 ATATATATATGTGACTAAAAATAAA
32458773 AAAATATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (26 bp):
ATATATATATGTGACTAAAAATAAAT
Found at i:32458779 original size:26 final size:26
Alignment explanation
Indices: 32458724--32458779 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
32458714 TATATATAAT
* * *
32458724 ATATATATTTGACTAAAAATAAATAT
1 ATATATATGTGACTAAAAATAAAAAA
*
32458750 ATATATATGTGATTAAAAATAAAAAA
1 ATATATATGTGACTAAAAATAAAAAA
32458776 ATAT
1 ATAT
32458780 TTAATATATA
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:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (26 bp):
ATATATATGTGACTAAAAATAAAAAA
Found at i:32460382 original size:2 final size:2
Alignment explanation
Indices: 32460375--32460407 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
32460365 GCTCTTAAGA
32460375 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32460408 AACATTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32462796 original size:15 final size:16
Alignment explanation
Indices: 32462766--32462796 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
32462756 ACGTTTCAAT
32462766 AATAAAAGGTTTGAAA
1 AATAAAAGGTTTGAAA
32462782 AATAAAAGG-TTGAAA
1 AATAAAAGGTTTGAAA
32462797 TTTCAGTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.58, C:0.00, G:0.19, T:0.23
Consensus pattern (16 bp):
AATAAAAGGTTTGAAA
Found at i:32462989 original size:18 final size:18
Alignment explanation
Indices: 32462956--32462995 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
32462946 ATATATATAT
*
32462956 ATATATATATATACACAC
1 ATATATATATACACACAC
*
32462974 ATATATATATACACACAT
1 ATATATATATACACACAC
32462992 ATAT
1 ATAT
32462996 TATTATTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (18 bp):
ATATATATATACACACAC
Found at i:32462995 original size:2 final size:2
Alignment explanation
Indices: 32462886--32462984 Score: 157
Period size: 2 Copynumber: 50.5 Consensus size: 2
32462876 AAAAGCTTTC
32462886 AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32462926 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
32462968 AC AC AC AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
32462985 CACACATATA
Statistics
Matches: 93, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
1 2 0.02
2 91 0.98
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:32464505 original size:21 final size:21
Alignment explanation
Indices: 32464481--32464574 Score: 62
Period size: 21 Copynumber: 4.5 Consensus size: 21
32464471 TGACTTAACC
*
32464481 GGTGGTGGTGGAGAATGGACA
1 GGTGGTGGTGGAGAATGAACA
* * * * *
32464502 GGTGGTGGAGGGGAGTAAACT
1 GGTGGTGGTGGAGAATGAACA
* * ** * *
32464523 GGTGCTGGTGGTGGCTTAACC
1 GGTGGTGGTGGAGAATGAACA
* *
32464544 GGTGGAGGTGGAGAATGGACA
1 GGTGGTGGTGGAGAATGAACA
32464565 GGTGGTGGTG
1 GGTGGTGGTG
32464575 AGGAGACGGG
Statistics
Matches: 51, Mismatches: 22, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.19, C:0.07, G:0.52, T:0.21
Consensus pattern (21 bp):
GGTGGTGGTGGAGAATGAACA
Found at i:32471512 original size:46 final size:46
Alignment explanation
Indices: 32471494--32471742 Score: 318
Period size: 46 Copynumber: 5.3 Consensus size: 46
32471484 TGACAAGTGG
* ** *
32471494 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC
** *
32471540 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC
*
32471586 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC
** * *
32471632 AAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC
* *
32471684 AAAGTGATAAGTAATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC
32471730 AAAGTGATAAGTG
1 AAAGTGATAAGTG
32471743 GCTACACTTA
Statistics
Matches: 182, Mismatches: 15, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
46 141 0.77
52 41 0.23
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC
Found at i:32471548 original size:98 final size:92
Alignment explanation
Indices: 32471494--32471742 Score: 381
Period size: 98 Copynumber: 2.6 Consensus size: 92
32471484 TGACAAGTGG
** *
32471494 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCT
1 AAAGTGATAAGTAATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCT
32471559 TCGGCTATACTTATCTGATCAAGTGAC
66 TCGGCTATACTTATCTGATCAAGTGAC
**
32471586 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTAATAGCTTTAGCTACACTTATCTGATCAAGTGAC------AAAGTGATAAGTG
*
32471651 ATAGCTTCGGCTATACTTATCTGATCAAGAGAC
60 ATAGCTTCGGCTATACTTATCTGATCAAGTGAC
*
32471684 AAAGTGATAAGTAATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 AAAGTGATAAGTAATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
32471743 GCTACACTTA
Statistics
Matches: 142, Mismatches: 9, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
92 54 0.38
98 88 0.62
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (92 bp):
AAAGTGATAAGTAATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCT
TCGGCTATACTTATCTGATCAAGTGAC
Found at i:32471688 original size:144 final size:144
Alignment explanation
Indices: 32471428--32471743 Score: 551
Period size: 144 Copynumber: 2.2 Consensus size: 144
32471418 TTTGAGTACT
32471428 TCTGATCAAGTGACAAAGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
32471493 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGC
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTAATAGC
* *
32471558 TTCGGCTATACTTA
131 TTCAGCTACACTTA
*
32471572 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
32471637 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTAATAGC
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTAATAGC
*
32471702 TTTAGCTACACTTA
131 TTCAGCTACACTTA
*
32471716 TCTGATCAAGAGACAAAGTGATAAGTGG
1 TCTGATCAAGTGACAAAGTGATAAGTGG
32471744 CTACACTTAT
Statistics
Matches: 163, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
144 163 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (144 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTAATAGC
TTCAGCTACACTTA
Found at i:32471756 original size:37 final size:37
Alignment explanation
Indices: 32471706--32471925 Score: 381
Period size: 37 Copynumber: 6.0 Consensus size: 37
32471696 AATAGCTTTA
*
32471706 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
32471743 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
32471780 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
32471817 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
* *
32471854 GCTACACTTATTTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
32471891 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
32471926 ATCATACGTA
Statistics
Matches: 176, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
35 11 0.06
36 4 0.02
37 161 0.91
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:32473032 original size:18 final size:18
Alignment explanation
Indices: 32473009--32473056 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
32472999 GTTAGAATTT
* *
32473009 TTAAAAGTTGTAAAAAAA
1 TTAAAAATTATAAAAAAA
*
32473027 TTAAAAATTATATAAAAA
1 TTAAAAATTATAAAAAAA
32473045 TTATAAAATTAT
1 TTA-AAAATTAT
32473057 GTAACAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 18 0.69
19 8 0.31
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (18 bp):
TTAAAAATTATAAAAAAA
Found at i:32478379 original size:14 final size:15
Alignment explanation
Indices: 32478360--32478389 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
32478350 AAAATTATTT
32478360 TTTTAATAA-ATTAA
1 TTTTAATAATATTAA
32478374 TTTTAATAATATTAA
1 TTTTAATAATATTAA
32478389 T
1 T
32478390 AATTAAACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTTAATAATATTAA
Found at i:32494481 original size:15 final size:16
Alignment explanation
Indices: 32494461--32494490 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
32494451 TAAATTTGTT
32494461 ATTATAT-CAATTAAA
1 ATTATATACAATTAAA
32494476 ATTATATACAATTAA
1 ATTATATACAATTAA
32494491 CGGAATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (16 bp):
ATTATATACAATTAAA
Found at i:32494651 original size:4 final size:4
Alignment explanation
Indices: 32494642--32494672 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
32494632 AGGGCCCATG
*
32494642 AATT AATT AATT AATT AGTT AATT AATT AAT
1 AATT AATT AATT AATT AATT AATT AATT AAT
32494673 AAAAATCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:32496224 original size:16 final size:15
Alignment explanation
Indices: 32496198--32496236 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
32496188 AATTAGTGAG
32496198 TTTTTTAAAAAATAT
1 TTTTTTAAAAAATAT
*
32496213 TTTTTTATAAAATTAT
1 TTTTTTA-AAAAATAT
*
32496229 TATTTTAA
1 TTTTTTAA
32496237 TAAGTAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTTTTAAAAAATAT
Found at i:32501065 original size:25 final size:24
Alignment explanation
Indices: 32501004--32501094 Score: 69
Period size: 25 Copynumber: 3.7 Consensus size: 24
32500994 ATTCAAGAAT
*
32501004 GCTCATGTGAG-CATATAAACGGGTA
1 GCTCATGTGAGCCATATAAA--GGAA
*
32501029 GCTC-TTTCGAGCCATATAATAGGAA
1 GCTCATGT-GAGCCATATAA-AGGAA
* *
32501054 GCTCATGTGAGCCATGTAACGGGAA
1 GCTCATGTGAGCCATATAA-AGGAA
**
32501079 GCTCATAAGAGCCATA
1 GCTCATGTGAGCCATA
32501095 ATTGGGAAGC
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
24 2 0.04
25 41 0.77
26 9 0.17
27 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (24 bp):
GCTCATGTGAGCCATATAAAGGAA
Found at i:32501148 original size:24 final size:24
Alignment explanation
Indices: 32501018--32501191 Score: 70
Period size: 24 Copynumber: 7.0 Consensus size: 24
32501008 ATGTGAGCAT
* ***
32501018 ATAAACGGGTAGCTCTTTCGAGCC
1 ATAAACGGGAAGCTCTAGAGAGCC
** *
32501042 ATATAATAGGAAGCTC-ATGTGAGCC
1 ATA-AACGGGAAGCTCTA-GAGAGCC
*
32501067 ATGTAACGGGAAGCTCATA-AGAGCC
1 AT-AAACGGGAAGCTC-TAGAGAGCC
** *
32501092 ATAATTGGGAAGCT-TATGCGAG--
1 ATAAACGGGAAGCTCTA-GAGAGCC
*
32501114 GTAATATCGGGAAGCTCTAGAGAGCC
1 ATAA-A-CGGGAAGCTCTAGAGAGCC
*
32501140 ATAAACGGGAAGCTCATGAGAGAGCT
1 ATAAACGGGAAGCTC-T-AGAGAGCC
* *
32501166 TTAAATCGGGAGGCTCATGAGAGAGC
1 ATAAA-CGGGAAGCTC-T-AGAGAGC
32501192 TTTAAATTAG
Statistics
Matches: 113, Mismatches: 22, Indels: 27
0.70 0.14 0.17
Matches are distributed among these distances:
22 5 0.04
24 37 0.33
25 37 0.33
26 14 0.12
27 20 0.18
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (24 bp):
ATAAACGGGAAGCTCTAGAGAGCC
Found at i:32501183 original size:27 final size:27
Alignment explanation
Indices: 32501119--32501208 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
32501109 GCGAGGTAAT
**
32501119 ATCGGGAAGCTC-T-AGAGAGCCATAA
1 ATCGGGAAGCTCATGAGAGAGCTTTAA
32501144 A-CGGGAAGCTCATGAGAGAGCTTTAA
1 ATCGGGAAGCTCATGAGAGAGCTTTAA
*
32501170 ATCGGGAGGCTCATGAGAGAGCTTTAA
1 ATCGGGAAGCTCATGAGAGAGCTTTAA
**
32501197 ATTAGGAAGCTC
1 ATCGGGAAGCTC
32501209 GTAAGAGCCA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
24 10 0.18
25 2 0.04
26 11 0.20
27 33 0.59
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (27 bp):
ATCGGGAAGCTCATGAGAGAGCTTTAA
Found at i:32501289 original size:25 final size:24
Alignment explanation
Indices: 32501237--32501316 Score: 70
Period size: 25 Copynumber: 3.2 Consensus size: 24
32501227 GATGCTCATA
* * **
32501237 AGAGCTAAATAACGGGAAGCTCGTG
1 AGAGC-AAATATCGAGAAGCTCCAG
32501262 AGAGTCAAATATCGAGAAGCTCCAG
1 AGAG-CAAATATCGAGAAGCTCCAG
* * *
32501287 AGAGCCATTAATCGAGAAGCTCCGG
1 AGAGCAAAT-ATCGAGAAGCTCCAG
32501312 AGAGC
1 AGAGC
32501317 CATTTATCAG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
24 3 0.07
25 42 0.91
26 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.29, T:0.15
Consensus pattern (24 bp):
AGAGCAAATATCGAGAAGCTCCAG
Found at i:32501340 original size:27 final size:25
Alignment explanation
Indices: 32501272--32501333 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
32501262 AGAGTCAAAT
*
32501272 ATCGAGAAGCTCCAGAGAGCCATTA
1 ATCGAGAAGCTCCGGAGAGCCATTA
*
32501297 ATCGAGAAGCTCCGGAGAGCCATTT
1 ATCGAGAAGCTCCGGAGAGCCATTA
32501322 ATC-AGGAAGCTC
1 ATCGA-GAAGCTC
32501334 ATTGGAGCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
24 1 0.03
25 33 0.97
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (25 bp):
ATCGAGAAGCTCCGGAGAGCCATTA
Found at i:32501341 original size:25 final size:25
Alignment explanation
Indices: 32501313--32501366 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
32501303 AAGCTCCGGA
*
32501313 GAGCCATTTATCAGGAAGCTCATTG-
1 GAGCCAATTATCAGGAAGCTC-TTGC
* *
32501338 GAGCCAATTATCGGGACGCTCTTGC
1 GAGCCAATTATCAGGAAGCTCTTGC
32501363 GAGC
1 GAGC
32501367 TGTGGTGTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 3 0.12
25 22 0.88
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (25 bp):
GAGCCAATTATCAGGAAGCTCTTGC
Found at i:32504709 original size:18 final size:17
Alignment explanation
Indices: 32504688--32504756 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 17
32504678 TAACTTTCGC
32504688 TATTATTATTA-TATCTG
1 TATTATTATTACTAT-TG
** *
32504705 ATATTGCTATTATTATTG
1 -TATTATTATTACTATTG
32504723 TATTATTATTACT-TATG
1 TATTATTATTACTAT-TG
32504740 TTATTATTATTACTATT
1 -TATTATTATTACTATT
32504757 ATTGGCTCAT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
16 1 0.02
17 12 0.29
18 25 0.60
19 4 0.10
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (17 bp):
TATTATTATTACTATTG
Found at i:32505132 original size:2 final size:2
Alignment explanation
Indices: 32505127--32505188 Score: 51
Period size: 2 Copynumber: 32.5 Consensus size: 2
32505117 CATGTTTACC
* * *
32505127 TA TA TA TA TA TA TA TA TA T- TT TA TA TA -A TA -A TT TCA GA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA
*
32505166 TA CA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
32505189 TTTTTTCATG
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
1 4 0.08
2 45 0.92
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:32505160 original size:13 final size:15
Alignment explanation
Indices: 32505133--32505191 Score: 52
Period size: 15 Copynumber: 4.1 Consensus size: 15
32505123 TACCTATATA
32505133 TATATATATATATTT
1 TATATATATATATTT
32505148 TATATA-ATA-ATTT
1 TATATATATATATTT
* * * *
32505161 CAGA-ATACATATATA
1 TATATATATATAT-TT
32505176 TATATATATATATTT
1 TATATATATATATTT
32505191 T
1 T
32505192 TTTCATGTTT
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
12 1 0.03
13 8 0.25
14 5 0.16
15 11 0.34
16 7 0.22
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (15 bp):
TATATATATATATTT
Found at i:32505768 original size:111 final size:108
Alignment explanation
Indices: 32505611--32505916 Score: 417
Period size: 111 Copynumber: 2.9 Consensus size: 108
32505601 TTTCTAATTG
* * *
32505611 AGGCAATATTTAGCGTTTGA-AAATTCGAGAAGACGTGCCCTAATGTGCTGGGTTTTGATTTTTC
1 AGGCAATATTTTGCGTTTGAGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTC
*
32505675 TCGTTCAACCAAATAGCTAAATGTCCTTTTAAAAAATCT-CAAAATA
66 TCGTTCAACCAAATAGCTAAATATCCTTTT-AAAAAT-TAC-AAA-A
* *
32505721 AGGCAATATTTTGCATTTGAGAAATTCGAGAAAAAGTGCCCTAATGTGCTGGGTTTCGATTTTTC
1 AGGCAATATTTTGCGTTTGAGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTC
32505786 TCGTTCAACCAAATAGCTAAATATCCTTTTAAAAATTACAAAA
66 TCGTTCAACCAAATAGCTAAATATCCTTTTAAAAATTACAAAA
* * * *
32505829 AGGTAATGTTTTGCGTTTG-GAAATTCGAG-GAACGTGCCCTAATGTGTTGGGTTTCGA--TTTC
1 AGGCAATATTTTGCGTTTGAGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTC
* * *
32505890 TCGTTTAACCAAATTGCCAAATATCCT
66 TCGTTCAACCAAATAGCTAAATATCCT
32505917 CTTGAATTTA
Statistics
Matches: 179, Mismatches: 15, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
104 28 0.16
106 25 0.14
107 10 0.06
108 17 0.09
109 4 0.02
110 25 0.14
111 70 0.39
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.34
Consensus pattern (108 bp):
AGGCAATATTTTGCGTTTGAGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTC
TCGTTCAACCAAATAGCTAAATATCCTTTTAAAAATTACAAAA
Found at i:32527631 original size:30 final size:29
Alignment explanation
Indices: 32527591--32527647 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
32527581 AAGCCATTTT
32527591 AAATTTTAAAAATCATAAAAATATAAACA
1 AAATTTTAAAAATCATAAAAATATAAACA
** *
32527620 AAATTTATAAAAATTTTAAAATTATAAA
1 AAATTT-TAAAAATCATAAAAATATAAA
32527648 ATTATAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 6 0.25
30 18 0.75
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (29 bp):
AAATTTTAAAAATCATAAAAATATAAACA
Found at i:32527650 original size:16 final size:17
Alignment explanation
Indices: 32527619--32527658 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
32527609 AAATATAAAC
*
32527619 AAAATTTATAAAAATTTT
1 AAAA-TTATAAAAATTAT
32527637 AAAATTAT-AAAATTAT
1 AAAATTATAAAAATTAT
32527653 AAAATT
1 AAAATT
32527659 TTTATTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 13 0.62
17 4 0.19
18 4 0.19
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAATTATAAAAATTAT
Found at i:32530876 original size:41 final size:37
Alignment explanation
Indices: 32530819--32530912 Score: 116
Period size: 37 Copynumber: 2.4 Consensus size: 37
32530809 CGAGCTATTA
*
32530819 CACCCAATGTCTCATCGAATAAATCCGAAGTAGTAAATTGG
1 CACCCAGTGTCTCATCGAATAAA-CCG-A--AGTAAATTGG
**
32530860 CACCCAGTGTCTCATCGGTTAAACCGAAGTAAATTGG
1 CACCCAGTGTCTCATCGAATAAACCGAAGTAAATTGG
*
32530897 CACCCAGTGCCTCATC
1 CACCCAGTGTCTCATC
32530913 AACTCGAAGT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
37 25 0.51
39 1 0.02
40 3 0.06
41 20 0.41
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (37 bp):
CACCCAGTGTCTCATCGAATAAACCGAAGTAAATTGG
Found at i:32531815 original size:4 final size:4
Alignment explanation
Indices: 32531806--32531884 Score: 61
Period size: 4 Copynumber: 18.0 Consensus size: 4
32531796 TGTCTTTCTC
*
32531806 CTTT CTTT CTTT CCTTT CTTT -TTT CTTCT TTTT CTTTT CTTT CTTT CCTTT
1 CTTT CTTT CTTT -CTTT CTTT CTTT CTT-T CTTT C-TTT CTTT CTTT -CTTT
*
32531857 CTATTT CGTCTT GTTT CTTT CTTT CTTT
1 C--TTT C-T-TT CTTT CTTT CTTT CTTT
32531885 ATTCATTTGC
Statistics
Matches: 62, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
3 3 0.05
4 36 0.58
5 17 0.27
6 6 0.10
ACGTcount: A:0.01, C:0.24, G:0.03, T:0.72
Consensus pattern (4 bp):
CTTT
Found at i:32531824 original size:9 final size:9
Alignment explanation
Indices: 32531806--32531858 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
32531796 TGTCTTTCTC
32531806 CTTT-CTTT
1 CTTTCCTTT
32531814 CTTTCCTTT
1 CTTTCCTTT
32531823 CTTT--TTT
1 CTTTCCTTT
*
32531830 C-TTCTTTTT
1 CTTTC-CTTT
*
32531839 CTTTTCTTT
1 CTTTCCTTT
32531848 CTTTCCTTT
1 CTTTCCTTT
32531857 CT
1 CT
32531859 ATTTCGTCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
6 2 0.05
7 4 0.11
8 4 0.11
9 25 0.68
10 2 0.05
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (9 bp):
CTTTCCTTT
Found at i:32531845 original size:34 final size:32
Alignment explanation
Indices: 32531797--32531884 Score: 113
Period size: 34 Copynumber: 2.6 Consensus size: 32
32531787 CCCTAGCCTT
* *
32531797 GTCTTTCTCCTTTCTTTCTTTCCTTTCTTTTTTC
1 GTCTTT-TTCTTTCTTTCTTTCCTTTC-TATTTC
*
32531831 TTCTTTTTCTTTTCTTTCTTTCCTTTCTATTTC
1 GTCTTTTTC-TTTCTTTCTTTCCTTTCTATTTC
32531864 GTCTTGTTTCTTTCTTTCTTT
1 GTCTT-TTTCTTTCTTTCTTT
32531885 ATTCATTTGC
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
33 22 0.46
34 26 0.54
ACGTcount: A:0.01, C:0.25, G:0.03, T:0.70
Consensus pattern (32 bp):
GTCTTTTTCTTTCTTTCTTTCCTTTCTATTTC
Found at i:32531851 original size:29 final size:33
Alignment explanation
Indices: 32531806--32531884 Score: 115
Period size: 33 Copynumber: 2.4 Consensus size: 33
32531796 TGTCTTTCTC
* *
32531806 CTTTCTTTCTTTCCTTTCTTTTTTCTTCTT-TTT
1 CTTTCTTTCTTTCCTTTC-TATTTCGTCTTGTTT
32531839 CTTTTCTTTCTTTCCTTTCTATTTCGTCTTGTTT
1 C-TTTCTTTCTTTCCTTTCTATTTCGTCTTGTTT
32531873 CTTTCTTTCTTT
1 CTTTCTTTCTTT
32531885 ATTCATTTGC
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
33 21 0.50
34 21 0.50
ACGTcount: A:0.01, C:0.24, G:0.03, T:0.72
Consensus pattern (33 bp):
CTTTCTTTCTTTCCTTTCTATTTCGTCTTGTTT
Found at i:32531956 original size:26 final size:25
Alignment explanation
Indices: 32531909--32531957 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
32531899 TTGTTTTGTT
* *
32531909 TTATTATATTTACTTTATTATTATA
1 TTATTATATTTACTTAAATATTATA
32531934 TTATATATATTTACTTAAATATTA
1 TTAT-TATATTTACTTAAATATTA
32531958 AGTAAACATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (25 bp):
TTATTATATTTACTTAAATATTATA
Found at i:32534364 original size:12 final size:12
Alignment explanation
Indices: 32534347--32534372 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
32534337 TATATTTTTT
32534347 ATAAATTATTTA
1 ATAAATTATTTA
32534359 ATAAATTATTTA
1 ATAAATTATTTA
32534371 AT
1 AT
32534373 TATTTAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATAAATTATTTA
Found at i:32535297 original size:15 final size:16
Alignment explanation
Indices: 32535261--32535298 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
32535251 AAAAATTTTT
*
32535261 ATTTTATAAATATTTGA
1 ATTTT-TAAAGATTTGA
32535278 ATTTTTAAAGATTT-A
1 ATTTTTAAAGATTTGA
32535293 ATTTTT
1 ATTTTT
32535299 TTTTTGAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 7 0.35
16 8 0.40
17 5 0.25
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (16 bp):
ATTTTTAAAGATTTGA
Found at i:32539866 original size:79 final size:79
Alignment explanation
Indices: 32539765--32539930 Score: 271
Period size: 79 Copynumber: 2.1 Consensus size: 79
32539755 ATCGAGTTAT
*
32539765 TCAAGTTTGAACCGAGTTTAATTTTATAATTTGAATAACTCAAATAATTCAAATGGTGTAAATA-
1 TCAAGTTTGAACCGAGTTTAATTTTATAATTTGAATAACTCAAATAATTCAAATAGTGTAAATAT
*
32539829 CTTTTTAGGTCCCTA
66 C-CTTTAGGTCCCTA
*
32539844 TCAAGTTTGAACCGAGTTTAATTTTATAATTTGAATAACTCGAATAATTCAAATAGTGTAAATAT
1 TCAAGTTTGAACCGAGTTTAATTTTATAATTTGAATAACTCAAATAATTCAAATAGTGTAAATAT
*
32539909 CCTTTAGGTTCCTA
66 CCTTTAGGTCCCTA
*
32539923 CCAAGTTT
1 TCAAGTTT
32539931 AAAAATGAGC
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
79 80 0.99
80 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (79 bp):
TCAAGTTTGAACCGAGTTTAATTTTATAATTTGAATAACTCAAATAATTCAAATAGTGTAAATAT
CCTTTAGGTCCCTA
Found at i:32543758 original size:2 final size:2
Alignment explanation
Indices: 32543751--32543797 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
32543741 AATGAACAGG
* *
32543751 GA GA GA GA GA GA GA GA GA GA CA GA GA GA GA GA GA GA GA GA GC
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
32543793 GA GA G
1 GA GA G
32543798 CTCACCACTG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.47, C:0.04, G:0.49, T:0.00
Consensus pattern (2 bp):
GA
Found at i:32545493 original size:18 final size:18
Alignment explanation
Indices: 32545470--32545505 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
32545460 TTCACATGAA
32545470 GAAATCTAATAACCATAT
1 GAAATCTAATAACCATAT
*
32545488 GAAATCTAATAATCATAT
1 GAAATCTAATAACCATAT
32545506 TGAAGATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.50, C:0.14, G:0.06, T:0.31
Consensus pattern (18 bp):
GAAATCTAATAACCATAT
Found at i:32557588 original size:25 final size:23
Alignment explanation
Indices: 32557545--32557615 Score: 61
Period size: 25 Copynumber: 3.0 Consensus size: 23
32557535 AGATGACTAT
*
32557545 ATAAAAAATTTAATAAATAAAAA
1 ATAAAAAATTTAAAAAATAAAAA
* *
32557568 ATAAAAAATATTAAAATAATATAAT
1 ATAAAAAAT-TTAAAA-AATAAAAA
** *
32557593 ATAAATATTTTTTAAAAATAAAA
1 ATAAA-AAATTTAAAAAATAAAA
32557616 TGGGTAGGGC
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
23 9 0.24
24 11 0.29
25 16 0.42
26 2 0.05
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (23 bp):
ATAAAAAATTTAAAAAATAAAAA
Found at i:32558549 original size:39 final size:39
Alignment explanation
Indices: 32558504--32558587 Score: 168
Period size: 39 Copynumber: 2.2 Consensus size: 39
32558494 TCTTAAATAA
32558504 TTAATTAAAATTGGAAACACAAAACAAAGTGATACCAAC
1 TTAATTAAAATTGGAAACACAAAACAAAGTGATACCAAC
32558543 TTAATTAAAATTGGAAACACAAAACAAAGTGATACCAAC
1 TTAATTAAAATTGGAAACACAAAACAAAGTGATACCAAC
32558582 TTAATT
1 TTAATT
32558588 GGGACAAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.52, C:0.14, G:0.10, T:0.24
Consensus pattern (39 bp):
TTAATTAAAATTGGAAACACAAAACAAAGTGATACCAAC
Found at i:32559229 original size:63 final size:63
Alignment explanation
Indices: 32559152--32559272 Score: 242
Period size: 63 Copynumber: 1.9 Consensus size: 63
32559142 TTAATACATG
32559152 ATAAAATTATATTTTAACCTCTAAAAAAATTATACTTTAATTGCAATCCCCCTACTTTTATTA
1 ATAAAATTATATTTTAACCTCTAAAAAAATTATACTTTAATTGCAATCCCCCTACTTTTATTA
32559215 ATAAAATTATATTTTAACCTCTAAAAAAATTATACTTTAATTGCAATCCCCCTACTTT
1 ATAAAATTATATTTTAACCTCTAAAAAAATTATACTTTAATTGCAATCCCCCTACTTT
32559273 AATTGCAATC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.40, C:0.18, G:0.02, T:0.40
Consensus pattern (63 bp):
ATAAAATTATATTTTAACCTCTAAAAAAATTATACTTTAATTGCAATCCCCCTACTTTTATTA
Found at i:32559294 original size:21 final size:20
Alignment explanation
Indices: 32559247--32559292 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
32559237 AAAAAAATTA
32559247 TACTTTAATTGCAATCCCCC
1 TACTTTAATTGCAATCCCCC
32559267 TACTTTAATTGCAATCCCCC
1 TACTTTAATTGCAATCCCCC
32559287 TACTTT
1 TACTTT
32559293 TATTAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.24, C:0.33, G:0.04, T:0.39
Consensus pattern (20 bp):
TACTTTAATTGCAATCCCCC
Found at i:32559303 original size:21 final size:20
Alignment explanation
Indices: 32559247--32559300 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
32559237 AAAAAAATTA
**
32559247 TACTTTAATTGCAATCCCCC
1 TACTTTAATTAAAATCCCCC
**
32559267 TACTTTAATTGCAATCCCCC
1 TACTTTAATTAAAATCCCCC
*
32559287 TACTTTTATTAAAA
1 TACTTTAATTAAAA
32559301 ATCATAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.30, C:0.28, G:0.04, T:0.39
Consensus pattern (20 bp):
TACTTTAATTAAAATCCCCC
Found at i:32559354 original size:83 final size:86
Alignment explanation
Indices: 32559129--32559359 Score: 262
Period size: 83 Copynumber: 2.8 Consensus size: 86
32559119 TTTAAAAATG
32559129 ATAAAATCATAAATTAATACATGATAAAATTATATTTTAACCTCTAAAAAAATTATACTTTAATT
1 ATAAAATCATAAATTAATACATGATAAAATTATATTTTAACCTCTAAAAAAATTATACTTTAATT
32559194 GCAATCCCCCTACTTTTATTA
66 GCAATCCCCCTACTTTTATTA
* ** * * * ** ******
32559215 ATAAAATTATATTTTAACCT-C-TAAAAAAATTATACTTTAA--T-TGCAATCCCCCTACTTTAA
1 ATAAAATCATAAATTAA--TACATGATAAAATTATATTTTAACCTCTAAAAAAATTATACTTTAA
32559275 TTGCAATCCCCCTACTTTTATT-
64 TTGCAATCCCCCTACTTTTATTA
32559297 A-AAAATCATAAATTAATACATGATAAAATTATATTTTAACCTCT-AAAAAATTATACTTTAATT
1 ATAAAATCATAAATTAATACATGATAAAATTATATTTTAACCTCTAAAAAAATTATACTTTAATT
32559360 TTTAAAAAAT
Statistics
Matches: 111, Mismatches: 27, Indels: 17
0.72 0.17 0.11
Matches are distributed among these distances:
79 1 0.01
80 1 0.01
81 28 0.25
82 1 0.01
83 46 0.41
84 2 0.02
86 30 0.27
87 1 0.01
88 1 0.01
ACGTcount: A:0.43, C:0.16, G:0.02, T:0.39
Consensus pattern (86 bp):
ATAAAATCATAAATTAATACATGATAAAATTATATTTTAACCTCTAAAAAAATTATACTTTAATT
GCAATCCCCCTACTTTTATTA
Found at i:32566942 original size:2 final size:2
Alignment explanation
Indices: 32566935--32566967 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
32566925 CTATTAACAA
32566935 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32566968 AGAAAAGTCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32568616 original size:23 final size:24
Alignment explanation
Indices: 32568577--32568621 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
32568567 CCGGCCCGAT
*
32568577 TTTTAATAAATACAAAA-AAAATA
1 TTTTAATAAATAAAAAATAAAATA
32568600 TTTTAA-AAATAAAAAAATAAAA
1 TTTTAATAAAT-AAAAAATAAAA
32568622 AAAATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 11 0.58
24 4 0.21
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (24 bp):
TTTTAATAAATAAAAAATAAAATA
Found at i:32576191 original size:19 final size:19
Alignment explanation
Indices: 32576167--32576205 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
32576157 ATGTTCTATG
32576167 TTTATAATATA-ATATATTA
1 TTTAT-ATATAGATATATTA
32576186 TTTATATATAGATATATTA
1 TTTATATATAGATATATTA
32576205 T
1 T
32576206 ATAATTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
TTTATATATAGATATATTA
Found at i:32576206 original size:24 final size:23
Alignment explanation
Indices: 32576169--32576215 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
32576159 GTTCTATGTT
*
32576169 TATAATATAATATATTATTTATA
1 TATAATATAATATATAATTTATA
*
32576192 TATAGATATATTATATAATTTATA
1 TATA-ATATAATATATAATTTATA
32576216 AAACATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
TATAATATAATATATAATTTATA
Found at i:32577333 original size:17 final size:17
Alignment explanation
Indices: 32577311--32577343 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
32577301 ATATTTATTA
32577311 TTTTTAATCAAATATAC
1 TTTTTAATCAAATATAC
32577328 TTTTTAATCAAATATA
1 TTTTTAATCAAATATA
32577344 TATATTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTTAATCAAATATAC
Found at i:32580995 original size:44 final size:43
Alignment explanation
Indices: 32580923--32581611 Score: 364
Period size: 44 Copynumber: 15.8 Consensus size: 43
32580913 ACCTGATGCG
* * * *
32580923 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTGTTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCC-TAGTTTTA
* * * * *
32580967 ATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TCCTAGTTTTA
* * *****
32581011 ATCTGCTCCGCTGTAATCTCAGGAAGATAAGAT-CT-GACACG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTAGTTTTA
* * * *
32581052 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCATTTA-TTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATC--CTAGTTTTA
* * * * *
32581096 ATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TCCTAGTTTTA
* * *
32581140 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-CTGAAATTCTTCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCT--AGTT-TT-A
* * * *** *
32581186 GTCTGTTCCACTGTAATCTCAGGGAAATAAGA-CCT-GACGTG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTAGTTTTA
* ** *
32581227 ATCTACTCTGCTGTAA-CTTCAGAGAGATAAGATCCTTCA-TTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCC-T-AGTTTTA
** * * ** *
32581271 ATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TCCTAGTTTTA
* *
32581315 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTTTCA-TTTTA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATC-CT-AGTTTTA
** * * * *
32581359 ATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TCCTAGTTTTA
* *
32581403 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-CTGAAATTCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCT--AGTT-TT-A
* * * * * ***
32581449 GTCTGTTCCACTATAATCTCAGGGAAATAAGA-CCT-GGTGCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTAGTTTTA
* * * *
32581490 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTGGTTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCC-TAGTTTTA
* * * * * *
32581534 ATCTGTTCCACTGTAATATCAGGGAGATAGGATTACTAGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TCCTAGTTTTA
* *
32581578 ATCTGCTCCGCTATAATCTCAGGGAGATAAGATC
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATC
32581612 TGAAATTCTT
Statistics
Matches: 476, Mismatches: 131, Indels: 77
0.70 0.19 0.11
Matches are distributed among these distances:
40 3 0.01
41 75 0.16
42 11 0.02
43 12 0.03
44 301 0.63
45 14 0.03
46 60 0.13
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (43 bp):
ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTAGTTTTA
Found at i:32581095 original size:129 final size:129
Alignment explanation
Indices: 32580862--32581439 Score: 562
Period size: 129 Copynumber: 4.4 Consensus size: 129
32580852 AACGTCGGGA
* * * * * * * * * * *
32580862 AGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAACCTGA-TGCGATC
1 AGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGACTTCGATC
* * *
32580926 TACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTGTAATCTCAGG
66 TACTCCACTGTAATC-TCAGAGAGATAAGAT-CTTTATTTTAATCCACTCCACTGTAATCTCAGG
32580990 G
129 G
* *
32580991 AGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGAAGATAAGATCTGAC-ACGATC
1 AGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGACTTCGATC
* *
32581055 TACTCTACTGTAA-CTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGTAATCTCAGG
66 TACTCCACTGTAATC-TCAGAGAGATAAGATC-TTTATTTTAATCCACTCCACTGTAATCTCAGG
32581119 G
129 G
32581120 AGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTC
1 AGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTG--A--CTTC
* ** * * * * ** * * **
32581185 GGTCTGTTCCACTGTAATCTCAGGGAAATAAGA-CCTGA-CGTGATCTACTCTGCTGTAA-CTTC
62 GATCTACTCCACTGTAATCTCAGAGAGATAAGATCTTTATTTTAATCCACTCCACTGTAATC-TC
*
32581247 AGAG
126 AGGG
* * * * ** * * *
32581251 AGATAAGA-TCCTTCA-TTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTC
1 AGATAGGATTAC-T-AGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA-T-CTGACTTC
* * * *
32581314 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTTTCATTTTAATCCACTCCACTGTAATCTC
62 GATCTACTCCACTGTAATCTCAGAGAGATAAGATCTTT-ATTTTAATCCACTCCACTGTAATCTC
32581379 AGGG
126 AGGG
32581383 AGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGA
1 AGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGA
32581440 AATTCTTCAG
Statistics
Matches: 367, Mismatches: 63, Indels: 37
0.79 0.13 0.08
Matches are distributed among these distances:
128 1 0.00
129 200 0.54
130 8 0.02
131 62 0.17
132 62 0.17
133 7 0.02
134 26 0.07
135 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (129 bp):
AGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGACTTCGATC
TACTCCACTGTAATCTCAGAGAGATAAGATCTTTATTTTAATCCACTCCACTGTAATCTCAGGG
Found at i:32581243 original size:175 final size:175
Alignment explanation
Indices: 32581012--32581349 Score: 570
Period size: 175 Copynumber: 1.9 Consensus size: 175
32581002 CTAGCTTCAA
* *
32581012 TCTGCTCCGCTGTAATCTCAGGAAGATAAGATCTGACACGATCTACTCTACTGTAACTTCAGAGA
1 TCTGCTCCACTGTAATCTCAGGAAGATAAGACCTGACACGATCTACTCTACTGTAACTTCAGAGA
* * *
32581077 GATAAGATCATTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAAT
66 GATAAGATCATTCATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAAT
32581142 CTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGG
131 CTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGG
* ** *
32581187 TCTGTTCCACTGTAATCTCAGGGAA-ATAAGACCTGACGTGATCTACTCTGCTGTAACTTCAGAG
1 TCTGCTCCACTGTAATCTCA-GGAAGATAAGACCTGACACGATCTACTCTACTGTAACTTCAGAG
*
32581251 AGATAAGATCCTTCATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAA
65 AGATAAGATCATTCATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAA
32581316 TCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT
130 TCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT
32581350 TTCATTTTAA
Statistics
Matches: 152, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
175 148 0.97
176 4 0.03
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (175 bp):
TCTGCTCCACTGTAATCTCAGGAAGATAAGACCTGACACGATCTACTCTACTGTAACTTCAGAGA
GATAAGATCATTCATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAAT
CTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGG
Found at i:32581399 original size:263 final size:262
Alignment explanation
Indices: 32581062--32581612 Score: 924
Period size: 263 Copynumber: 2.1 Consensus size: 262
32581052 ATCTACTCTA
* *
32581062 CTGTAA-CTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAG
1 CTGTAATC-TCAGGGAGATAAGATC-TTTATTTTAATCCACTCCACTGTAATCTCAGGGAGATAG
*
32581126 GATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTG
64 GATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTG
* * *
32581191 TTCCACTGTAATCTCAGGGAAATAAGACCTGACGTGATCTACTCTGCTGTAACTTCAGAGAGATA
129 TTCCACTATAATCTCAGGGAAATAAGACCTGACGCGATCTACTCTACTGTAACTTCAGAGAGATA
*
32581256 AGATCCTTCATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAATCTGC
194 AGATCCTTCATTTTAATCCACTCCACTGTAATATCAGGGAGATAGGATTACTAACTTCAATCTGC
32581321 TCCG
259 TCCG
32581325 CTGTAATCTCAGGGAGATAAGATCTTTCATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGG
1 CTGTAATCTCAGGGAGATAAGATCTTT-ATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGG
32581390 ATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTGT
65 ATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTGT
**
32581455 TCCACTATAATCTCAGGGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGAGATAA
130 TCCACTATAATCTCAGGGAAATAAGACCTGACGCGATCTACTCTACTGTAACTTCAGAGAGATAA
** *** *
32581520 GATCCTTGGTTTTAATCTGTTCCACTGTAATATCAGGGAGATAGGATTACTAGCTTCAATCTGCT
195 GATCCTTCATTTTAATCCACTCCACTGTAATATCAGGGAGATAGGATTACTAACTTCAATCTGCT
32581585 CCG
260 CCG
*
32581588 CTATAATCTCAGGGAGATAAGATCT
1 CTGTAATCTCAGGGAGATAAGATCT
32581613 GAAATTCTTC
Statistics
Matches: 270, Mismatches: 16, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
262 3 0.01
263 266 0.99
264 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (262 bp):
CTGTAATCTCAGGGAGATAAGATCTTTATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGA
TTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTGTT
CCACTATAATCTCAGGGAAATAAGACCTGACGCGATCTACTCTACTGTAACTTCAGAGAGATAAG
ATCCTTCATTTTAATCCACTCCACTGTAATATCAGGGAGATAGGATTACTAACTTCAATCTGCTC
CG
Found at i:32581519 original size:175 final size:175
Alignment explanation
Indices: 32581325--32581659 Score: 537
Period size: 175 Copynumber: 1.9 Consensus size: 175
32581315 ATCTGCTCCG
* * *
32581325 CTGTAATCTCAGGGAGATAAGATCTTTCATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGG
1 CTGTAATCTCAGAGAGATAAGATCCTTCATTTTAATCCACTCCACTGTAATATCAGGGAGATAGG
*
32581390 ATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTGT
66 ATTACTAGCTTCAATCTGCTCCGCTATAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTGT
*
32581455 TCCACTATAATCTCAGGGAAATAAGACCTGGTGCGATCTACTCTA
131 TCCACTATAATCTCAGGGAAAAAAGACCTGGTGCGATCTACTCTA
** ***
32581500 CTGTAA-CTTCAGAGAGATAAGATCCTTGGTTTTAATCTGTTCCACTGTAATATCAGGGAGATAG
1 CTGTAATC-TCAGAGAGATAAGATCCTTCATTTTAATCCACTCCACTGTAATATCAGGGAGATAG
*
32581564 GATTACTAGCTTCAATCTGCTCCGCTATAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTG
65 GATTACTAGCTTCAATCTGCTCCGCTATAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTG
* *
32581629 TTCCACTGTAATCTTAGGGAAAAAAGACCTG
130 TTCCACTATAATCTCAGGGAAAAAAGACCTG
32581660 TATAATGAAC
Statistics
Matches: 146, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
174 1 0.01
175 145 0.99
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (175 bp):
CTGTAATCTCAGAGAGATAAGATCCTTCATTTTAATCCACTCCACTGTAATATCAGGGAGATAGG
ATTACTAGCTTCAATCTGCTCCGCTATAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTGT
TCCACTATAATCTCAGGGAAAAAAGACCTGGTGCGATCTACTCTA
Found at i:32582725 original size:21 final size:21
Alignment explanation
Indices: 32582699--32582745 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
32582689 GGTATAGCAA
32582699 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** *
32582720 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
32582741 GATCA
1 GATCA
32582746 ATATTTGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.38, G:0.11, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:32583727 original size:7 final size:7
Alignment explanation
Indices: 32583704--32583742 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
32583694 TGACCTTTCC
32583704 TTTTCTT
1 TTTTCTT
*
32583711 TTTCTTTT
1 TTT-TCTT
32583719 TTTTCTT
1 TTTTCTT
32583726 TTTTCTT
1 TTTTCTT
*
32583733 CTTTCTT
1 TTTTCTT
32583740 TTT
1 TTT
32583743 CTCCTATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 21 0.78
8 6 0.22
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTCTT
Found at i:32583743 original size:6 final size:6
Alignment explanation
Indices: 32583699--32583744 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
32583689 CGCCTTGACC
* *
32583699 TTTCCT TTTCTT TTTCTT TTT-TT TCT-TT TTTCTT CTTTCTT TTTCT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT -TTTCTT TTTCT
32583745 CCTATTTTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
5 8 0.23
6 21 0.60
7 6 0.17
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTCTT
Found at i:32583791 original size:16 final size:16
Alignment explanation
Indices: 32583757--32583790 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
32583747 TATTTTTGAC
32583757 TTTGATTTTTTTGATT
1 TTTGATTTTTTTGATT
*
32583773 TTTGTTTTTTTTG-TT
1 TTTGATTTTTTTGATT
32583788 TTT
1 TTT
32583791 TTTAATCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.06, C:0.00, G:0.12, T:0.82
Consensus pattern (16 bp):
TTTGATTTTTTTGATT
Found at i:32592408 original size:8 final size:8
Alignment explanation
Indices: 32592392--32592434 Score: 61
Period size: 8 Copynumber: 5.4 Consensus size: 8
32592382 TTAATTAATT
32592392 AATTA-AA
1 AATTATAA
*
32592399 AATTTTAAA
1 AATTAT-AA
32592408 AATTATAA
1 AATTATAA
32592416 AATTATAA
1 AATTATAA
32592424 AATTATAA
1 AATTATAA
32592432 AAT
1 AAT
32592435 CAGTTCAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
7 4 0.12
8 21 0.66
9 7 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
AATTATAA
Found at i:32598412 original size:12 final size:12
Alignment explanation
Indices: 32598397--32598430 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
32598387 TAACCTACAT
32598397 AACTTACATAGA
1 AACTTACATAGA
*
32598409 AACTTATATAGA
1 AACTTACATAGA
*
32598421 AACTTGCATA
1 AACTTACATA
32598431 ACTTACATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.29
Consensus pattern (12 bp):
AACTTACATAGA
Found at i:32598495 original size:16 final size:16
Alignment explanation
Indices: 32598476--32598530 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
32598466 AGCGTACATA
*
32598476 ACTTACGTAATACACC
1 ACTTACATAATACACC
*
32598492 ACTTACATAA-ATA--
1 ACTTACATAATACACC
*
32598505 ACTTGCATAATACACC
1 ACTTACATAATACACC
32598521 ACTTACATAA
1 ACTTACATAA
32598531 ATAACTTGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
13 9 0.29
14 2 0.06
15 2 0.06
16 18 0.58
ACGTcount: A:0.44, C:0.25, G:0.04, T:0.27
Consensus pattern (16 bp):
ACTTACATAATACACC
Found at i:32598515 original size:29 final size:29
Alignment explanation
Indices: 32598473--32598547 Score: 123
Period size: 29 Copynumber: 2.6 Consensus size: 29
32598463 CATAGCGTAC
* *
32598473 ATAACTTACGTAATACACCACTTACATAA
1 ATAACTTGCATAATACACCACTTACATAA
32598502 ATAACTTGCATAATACACCACTTACATAA
1 ATAACTTGCATAATACACCACTTACATAA
*
32598531 ATAACTTGTATAATACA
1 ATAACTTGCATAATACA
32598548 TAGCCTACGT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.45, C:0.21, G:0.04, T:0.29
Consensus pattern (29 bp):
ATAACTTGCATAATACACCACTTACATAA
Found at i:32598841 original size:9 final size:9
Alignment explanation
Indices: 32598827--32598946 Score: 121
Period size: 9 Copynumber: 14.2 Consensus size: 9
32598817 CAAAATCAAA
32598827 AACTTACAT
1 AACTTACAT
32598836 AACTTACAT
1 AACTTACAT
*
32598845 AA--GACAT
1 AACTTACAT
*
32598852 AAATTACAT
1 AACTTACAT
* *
32598861 AACCTACTT
1 AACTTACAT
32598870 AA--TACAT
1 AACTTACAT
32598877 AACTTACAT
1 AACTTACAT
*
32598886 AACTTAGAT
1 AACTTACAT
32598895 AA--TACAT
1 AACTTACAT
32598902 AACTTACAT
1 AACTTACAT
* *
32598911 AATTTACTT
1 AACTTACAT
32598920 AA--TACAT
1 AACTTACAT
32598927 AACTTACAT
1 AACTTACAT
32598936 AACTTACAT
1 AACTTACAT
32598945 AA
1 AA
32598947 ATATCCCTTA
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
7 24 0.26
9 68 0.74
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (9 bp):
AACTTACAT
Found at i:32598853 original size:16 final size:17
Alignment explanation
Indices: 32598831--32598946 Score: 100
Period size: 16 Copynumber: 6.9 Consensus size: 17
32598821 ATCAAAAACT
32598831 TACATAACTTACATAA-
1 TACATAACTTACATAAC
* *
32598847 GACATAAATTACATAACC
1 TACATAACTTACATAA-C
*
32598865 TACTTAA--TACATAAC
1 TACATAACTTACATAAC
*
32598880 TTACATAACTTAGATAA-
1 -TACATAACTTACATAAC
*
32598897 TACATAACTTACATAATT
1 TACATAACTTACATAA-C
*
32598915 TACTTAA--TACATAAC
1 TACATAACTTACATAAC
32598930 TTACATAACTTACATAA
1 -TACATAACTTACATAA
32598947 ATATCCCTTA
Statistics
Matches: 80, Mismatches: 10, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
15 1 0.01
16 55 0.69
18 24 0.30
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (17 bp):
TACATAACTTACATAAC
Found at i:32598858 original size:25 final size:25
Alignment explanation
Indices: 32598827--32598946 Score: 177
Period size: 25 Copynumber: 4.8 Consensus size: 25
32598817 CAAAATCAAA
*
32598827 AACTTACATAACTTACATAAGACAT
1 AACTTACATAACTTACATAATACAT
* * *
32598852 AAATTACATAACCTACTTAATACAT
1 AACTTACATAACTTACATAATACAT
*
32598877 AACTTACATAACTTAGATAATACAT
1 AACTTACATAACTTACATAATACAT
* *
32598902 AACTTACATAATTTACTTAATACAT
1 AACTTACATAACTTACATAATACAT
32598927 AACTTACATAACTTACATAA
1 AACTTACATAACTTACATAA
32598947 ATATCCCTTA
Statistics
Matches: 82, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 82 1.00
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (25 bp):
AACTTACATAACTTACATAATACAT
Found at i:32598862 original size:50 final size:50
Alignment explanation
Indices: 32598800--32598946 Score: 172
Period size: 50 Copynumber: 2.9 Consensus size: 50
32598790 ATCAAATTAA
* ** *
32598800 ATAAGTTACATAATACACAAAAT-CAAAAACTTACATAACTTACATAAGAC
1 ATAAATTACATAATACACTTAATAC-ATAACTTACATAACTTACATAAGAC
* * *
32598850 ATAAATTACATAA-CCTACTTAATACATAACTTACATAACTTAGATAATAC
1 ATAAATTACATAATAC-ACTTAATACATAACTTACATAACTTACATAAGAC
* **
32598900 ATAACTTACATAATTTACTTAATACATAACTTACATAACTTACATAA
1 ATAAATTACATAATACACTTAATACATAACTTACATAACTTACATAA
32598947 ATATCCCTTA
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
49 1 0.01
50 81 0.98
51 1 0.01
ACGTcount: A:0.50, C:0.18, G:0.02, T:0.31
Consensus pattern (50 bp):
ATAAATTACATAATACACTTAATACATAACTTACATAACTTACATAAGAC
Found at i:32604225 original size:66 final size:66
Alignment explanation
Indices: 32604103--32604231 Score: 172
Period size: 66 Copynumber: 2.0 Consensus size: 66
32604093 GCAACATCGA
*
32604103 GAGAAGCTGAGGTTCAAAAAATATATGAAGAACTCCAGCTACAACTGAAAGTAGATGCAGCAGCG
1 GAGAAGCTGAGGTTCAAAAAATATATGAAGAACTCCAGCTACAACTGAAAGCAGATGCAGCAGCG
32604168 G
66 G
* * * * *
32604169 GAGAAGCTGAGGTTCAACGAAA-GTATGAAGAACTCCAGC-AGCAGCTTAAAGCAGATGCGGCAG
1 GAGAAGCTGAGGTTCAA-AAAATATATGAAGAACTCCAGCTA-CAACTGAAAGCAGATGCAGCAG
32604232 TAAGAGAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
65 1 0.02
66 51 0.93
67 3 0.05
ACGTcount: A:0.39, C:0.18, G:0.28, T:0.16
Consensus pattern (66 bp):
GAGAAGCTGAGGTTCAAAAAATATATGAAGAACTCCAGCTACAACTGAAAGCAGATGCAGCAGCG
G
Found at i:32604239 original size:66 final size:66
Alignment explanation
Indices: 32604102--32604246 Score: 168
Period size: 66 Copynumber: 2.2 Consensus size: 66
32604092 GGCAACATCG
*
32604102 AGAGAAGCTGAGGTTCAAAAAATATATGAAGAACTCCAGCTACAACTGAAAGTAGATGCAGCAGC
1 AGAGAAGCTGAGGTTCAAAAAATATATGAAGAACTCCAGCTACAACTGAAAGCAGATGCAGCAGC
*
32604167 G
66 A
* * * * * *
32604168 GGAGAAGCTGAGGTTCAACGAAA-GTATGAAGAACTCCAGC-AGCAGCTTAAAGCAGATGCGGCA
1 AGAGAAGCTGAGGTTCAA-AAAATATATGAAGAACTCCAGCTA-CAACTGAAAGCAGATGCAGCA
*
32604231 GTA
64 GCA
*
32604234 AGAGAAGCGGAGG
1 AGAGAAGCTGAGG
32604247 CGGCAGCTAG
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
65 1 0.02
66 62 0.94
67 3 0.05
ACGTcount: A:0.39, C:0.17, G:0.30, T:0.14
Consensus pattern (66 bp):
AGAGAAGCTGAGGTTCAAAAAATATATGAAGAACTCCAGCTACAACTGAAAGCAGATGCAGCAGC
A
Found at i:32604241 original size:21 final size:21
Alignment explanation
Indices: 32604217--32604261 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
32604207 CAGCAGCTTA
*
32604217 AAGCAGATGCGGCAG-TAAGAG
1 AAGCAGAGGCGGCAGCT-AGAG
*
32604238 AAGCGGAGGCGGCAGCTAGAG
1 AAGCAGAGGCGGCAGCTAGAG
32604259 AAG
1 AAG
32604262 TACAGGCTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.36, C:0.16, G:0.42, T:0.07
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCTAGAG
Found at i:32604698 original size:43 final size:43
Alignment explanation
Indices: 32604651--32604911 Score: 290
Period size: 43 Copynumber: 6.0 Consensus size: 43
32604641 AGGTGTTGGC
* *
32604651 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGT
1 CTTTAGCGGCGTTTTTGGTCAAAGCGCCGCTAAAGATTAGGGT
* * ** * *
32604694 CTTTAGCGACGTTTGTGGAAAAAGCGCCACTAAAGATTATGGT
1 CTTTAGCGGCGTTTTTGGTCAAAGCGCCGCTAAAGATTAGGGT
** *
32604737 CTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGATTAGGTT
1 CTTTAGCGGCGTTTTTGGTCAAAGCGCCGCTAAAGATTAGGGT
* * * *
32604780 CTTTAGTGGCGTTTTGTGGTCGAAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTT-TGGTCAAAGCGCCGCTAAAGATTAGGGT
* ** *
32604824 CTATT-GCGGCGTTTTAGGGGAAAGCGCCGCTAAAGATTAGGTT
1 CT-TTAGCGGCGTTTTTGGTCAAAGCGCCGCTAAAGATTAGGGT
* * * *
32604867 CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTTTGGTCAAAGCGCCGCTAAAGATTAGGGT
32604910 CT
1 CT
32604912 ATTCCGGCGT
Statistics
Matches: 177, Mismatches: 38, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
42 2 0.01
43 140 0.79
44 33 0.19
45 2 0.01
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTTGGTCAAAGCGCCGCTAAAGATTAGGGT
Found at i:32604848 original size:130 final size:129
Alignment explanation
Indices: 32604651--32604903 Score: 341
Period size: 130 Copynumber: 2.0 Consensus size: 129
32604641 AGGTGTTGGC
32604651 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGACGTTTGTGGAAAA
1 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGACGTTTGTGGAAAA
* *
32604716 AGCGCCACTAAAGATTATGG-TCTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGATTAGGTT
66 AGCGCCACTAAAGATTA-GGTTCTTTAGCGGCGTTTGTGGGCAAAGCGCCGCTAAAGATTAGGTT
* * * * *
32604780 CTTTAGTGGCGTTTTGTGGTCGAAGCGCCGCTATAGATCAGGGTCTATT-GCGGCGTTT-TAGGG
1 CTTTAGTGGCGTTTT-TGGTCAAAGCGCCGCTAAAGATAAGGGTCT-TTAGCGACGTTTGT-GGA
* * * * *
32604843 GAAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGAT
63 AAAAGCGCCACTAAAGATTAGGTTCTTTAGCGGCGTTTGTGGGCAAAGCGCCGCTAAAGAT
32604904 CAGGGTCTAT
Statistics
Matches: 108, Mismatches: 12, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
129 18 0.17
130 88 0.81
131 2 0.02
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (129 bp):
CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGACGTTTGTGGAAAA
AGCGCCACTAAAGATTAGGTTCTTTAGCGGCGTTTGTGGGCAAAGCGCCGCTAAAGATTAGGTT
Found at i:32604938 original size:43 final size:43
Alignment explanation
Indices: 32604671--32604941 Score: 172
Period size: 43 Copynumber: 6.3 Consensus size: 43
32604661 GTTTTTGGTC
* * * *
32604671 AAAGCGCCGCTAAAGATAAGGGTCT-TTAGCGACGTTTGTGGAA
1 AAAGCGCCGCTATAGATCAGGGTCTATT-GCGGCGTTTGAGGAA
* * * * ** **
32604714 AAAGCGCCACTAAAGATTATGGTCT-TTAGCGGCGTTTTTGGGG
1 AAAGCGCCGCTATAGATCAGGGTCTATT-GCGGCGTTTGAGGAA
* * * * * **
32604757 AAAGCGCCGCTAAAGATTAGGTTCT-TTAGTGGCGTTTTGTGGTC
1 AAAGCGCCGCTATAGATCAGGGTCTATT-GCGGCG-TTTGAGGAA
* * **
32604801 GAAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTTTAGGGG
1 AAAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGAGGAA
* * * * * **
32604844 AAAGCGCCGCTAAAGATTAGGTTCT-TTAGTGGCGTTTGTGGTC
1 AAAGCGCCGCTATAGATCAGGGTCTATT-GCGGCGTTTGAGGAA
* *
32604887 AAAGCGCCGCTATAGATCAGGGTCTATTCCGGCGTTTGAGAAA
1 AAAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGAGGAA
*
32604930 AAAACGCCGCTA
1 AAAGCGCCGCTA
32604942 AAGACCCTGA
Statistics
Matches: 182, Mismatches: 42, Indels: 8
0.78 0.18 0.03
Matches are distributed among these distances:
42 2 0.01
43 144 0.79
44 34 0.19
45 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.27
Consensus pattern (43 bp):
AAAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGAGGAA
Found at i:32604945 original size:86 final size:86
Alignment explanation
Indices: 32604671--32604923 Score: 364
Period size: 87 Copynumber: 2.9 Consensus size: 86
32604661 GTTTTTGGTC
* * * * ** * * * *
32604671 AAAGCGCCGCTAAAGATAAGGGTCTTTAGCGACGTTTGTGGAAAAAGCGCCACTAAAGATTATGG
1 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGG
*
32604736 TCT-TTAGCGGCGTTTTTGGGG
66 TCTATT-GCGGCGTTTTAGGGG
*
32604757 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTTGTGGTCGAAGCGCCGCTATAGATCAGG
1 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCG-TTTGTGGTCAAAGCGCCGCTATAGATCAGG
32604822 GTCTATTGCGGCGTTTTAGGGG
65 GTCTATTGCGGCGTTTTAGGGG
32604844 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGG
1 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGG
*
32604909 TCTATTCCGGCGTTT
66 TCTATTGCGGCGTTT
32604924 GAGAAAAAAA
Statistics
Matches: 151, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
86 74 0.49
87 75 0.50
88 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.29
Consensus pattern (86 bp):
AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGG
TCTATTGCGGCGTTTTAGGGG
Found at i:32609721 original size:20 final size:20
Alignment explanation
Indices: 32609696--32609740 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
32609686 TCAGTCCTAG
*
32609696 GAATAGTGGGGT-AAGTCAAT
1 GAATAGTAGGGTCAAGTC-AT
*
32609716 GAATAGTAGGGTCATGTCAT
1 GAATAGTAGGGTCAAGTCAT
32609736 GAATA
1 GAATA
32609741 ATAATAGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.36, C:0.07, G:0.31, T:0.27
Consensus pattern (20 bp):
GAATAGTAGGGTCAAGTCAT
Found at i:32614135 original size:23 final size:23
Alignment explanation
Indices: 32614109--32614165 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
32614099 GTATTAAATT
32614109 TACATAAAAAATAT-ATAGAATAA
1 TACATAAAAAATATGA-AGAATAA
* * *
32614132 TACATAATAAATTTGAAGAATGA
1 TACATAAAAAATATGAAGAATAA
*
32614155 TACATGAAAAA
1 TACATAAAAAA
32614166 CTTAAAATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 27 0.96
24 1 0.04
ACGTcount: A:0.60, C:0.05, G:0.09, T:0.26
Consensus pattern (23 bp):
TACATAAAAAATATGAAGAATAA
Found at i:32614192 original size:22 final size:21
Alignment explanation
Indices: 32614127--32614214 Score: 86
Period size: 21 Copynumber: 4.0 Consensus size: 21
32614117 AAATATATAG
* *
32614127 AATAATACATAATAAATTTGAA
1 AATAATATATGATAAATTT-AA
* * * *
32614149 GAATGATACATGAAAAACTTAA
1 -AATAATATATGATAAATTTAA
32614171 AATAATTATATGATAAATTTAA
1 AATAA-TATATGATAAATTTAA
*
32614193 AATAATATGTGATAAATTTAA
1 AATAATATATGATAAATTTAA
32614214 A
1 A
32614215 CAACATTCAT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
21 20 0.36
22 20 0.36
23 15 0.27
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.33
Consensus pattern (21 bp):
AATAATATATGATAAATTTAA
Found at i:32615398 original size:15 final size:15
Alignment explanation
Indices: 32615378--32615411 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
32615368 TTTCCTGCAC
32615378 TGGGCTGGTGGT-TAT
1 TGGGCTGG-GGTGTAT
32615393 TGGGCTGGGGTGTAT
1 TGGGCTGGGGTGTAT
32615408 TGGG
1 TGGG
32615412 TAATTCAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 3 0.17
15 15 0.83
ACGTcount: A:0.06, C:0.06, G:0.53, T:0.35
Consensus pattern (15 bp):
TGGGCTGGGGTGTAT
Found at i:32618947 original size:3 final size:3
Alignment explanation
Indices: 32618939--32618984 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
32618929 ATCGGAAGAT
*
32618939 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
32618985 ATTTGTTAGG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:32619214 original size:24 final size:25
Alignment explanation
Indices: 32619177--32619224 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
32619167 CTAACATGTC
* *
32619177 ATATCATGTCAATAAATA-ATATCT
1 ATATCATATAAATAAATAGATATCT
*
32619201 ATATCATATAAATATATAGATATC
1 ATATCATATAAATAAATAGATATC
32619225 GCTACCCAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (25 bp):
ATATCATATAAATAAATAGATATCT
Found at i:32622189 original size:20 final size:21
Alignment explanation
Indices: 32622164--32622208 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
32622154 CAGAATTAAA
32622164 TTTT-AAAGATTTAGT-AAAAT
1 TTTTAAAAG-TTTAGTGAAAAT
*
32622184 TTTTAAAAGTTTAGTGAGAAT
1 TTTTAAAAGTTTAGTGAAAAT
32622205 TTTT
1 TTTT
32622209 TTAAAAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (21 bp):
TTTTAAAAGTTTAGTGAAAAT
Found at i:32622205 original size:21 final size:20
Alignment explanation
Indices: 32622164--32622208 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
32622154 CAGAATTAAA
32622164 TTTTAAAGATTTAGTAAAAT
1 TTTTAAAGATTTAGTAAAAT
*
32622184 TTTTAAA-AGTTTAGTGAGAAT
1 TTTTAAAGA-TTTAGT-AAAAT
32622205 TTTT
1 TTTT
32622209 TTAAAAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 13 0.59
21 8 0.36
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (20 bp):
TTTTAAAGATTTAGTAAAAT
Found at i:32623178 original size:22 final size:22
Alignment explanation
Indices: 32623136--32623178 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
32623126 AAGTTCTAAG
* *
32623136 ATAATTCAAAGATCTTTAAACT
1 ATAATTCAAAGATATTCAAACT
32623158 ATAACTTCAAA-ATATTCAAAC
1 ATAA-TTCAAAGATATTCAAAC
32623179 CAACCTCCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
ATAATTCAAAGATATTCAAACT
Found at i:32626350 original size:28 final size:26
Alignment explanation
Indices: 32626289--32626342 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
32626279 GCATTTTTAT
32626289 AAAAATAACCTTTTTTTATTAATTAC
1 AAAAATAACCTTTTTTTATTAATTAC
*
32626315 AAAAATAACTTATTTTTTAATTAATTAC
1 AAAAATAACCT-TTTTTT-ATTAATTAC
32626343 GTAAATAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 10 0.40
27 6 0.24
28 9 0.36
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.46
Consensus pattern (26 bp):
AAAAATAACCTTTTTTTATTAATTAC
Found at i:32629283 original size:24 final size:24
Alignment explanation
Indices: 32629251--32629297 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
32629241 CCATTAAAAA
32629251 AACAGAACTCTTGACCTTTCATTT
1 AACAGAACTCTTGACCTTTCATTT
* *
32629275 AACATAACTCTTGACTTTTCATT
1 AACAGAACTCTTGACCTTTCATT
32629298 GAAGTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.23, G:0.06, T:0.40
Consensus pattern (24 bp):
AACAGAACTCTTGACCTTTCATTT
Found at i:32633123 original size:29 final size:29
Alignment explanation
Indices: 32633065--32633123 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
32633055 CTAAAATGTC
*
32633065 CCACGCTTCTTTTGAAGTTGTCGCATTTG
1 CCACGCTTCTTTTGAAGTTGTCGCACTTG
*
32633094 CCACGCTTCTTTTGAAGTTGTCGCGCTTG
1 CCACGCTTCTTTTGAAGTTGTCGCACTTG
32633123 C
1 C
32633124 AATCTTCTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.12, C:0.27, G:0.22, T:0.39
Consensus pattern (29 bp):
CCACGCTTCTTTTGAAGTTGTCGCACTTG
Found at i:32633599 original size:24 final size:24
Alignment explanation
Indices: 32633567--32633612 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
32633557 CCATTAAAAA
32633567 AACATAACTCTTGACCTTTCATCC
1 AACATAACTCTTGACCTTTCATCC
*
32633591 AACATAACTCTTGACTTTTCAT
1 AACATAACTCTTGACCTTTCAT
32633613 TTAAGTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.28, G:0.04, T:0.37
Consensus pattern (24 bp):
AACATAACTCTTGACCTTTCATCC
Found at i:32635614 original size:20 final size:22
Alignment explanation
Indices: 32635580--32635627 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
32635570 AACTAGTTCA
32635580 AGTTTGAGGGGTCATG-TTTGG
1 AGTTTGAGGGGTCATGATTTGG
* *
32635601 AGTTT-AGGGTTCATGATTTTG
1 AGTTTGAGGGGTCATGATTTGG
32635622 AGTTTG
1 AGTTTG
32635628 TGGTTCAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.17, C:0.04, G:0.35, T:0.44
Consensus pattern (22 bp):
AGTTTGAGGGGTCATGATTTGG
Found at i:32635685 original size:19 final size:19
Alignment explanation
Indices: 32635663--32635700 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
32635653 CGAAATCAGG
*
32635663 GTTTAAGTTCGAGGTTCAA
1 GTTTAAGGTCGAGGTTCAA
*
32635682 GTTTAAGGTCGGGGTTCAA
1 GTTTAAGGTCGAGGTTCAA
32635701 AGTTCAGGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.11, G:0.32, T:0.34
Consensus pattern (19 bp):
GTTTAAGGTCGAGGTTCAA
Found at i:32657362 original size:10 final size:10
Alignment explanation
Indices: 32657347--32657371 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
32657337 TTTCAACATG
32657347 TTTTACCTTA
1 TTTTACCTTA
32657357 TTTTACCTTA
1 TTTTACCTTA
32657367 TTTTA
1 TTTTA
32657372 TTATATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.16, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTTACCTTA
Found at i:32660988 original size:13 final size:14
Alignment explanation
Indices: 32660970--32660999 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
32660960 TGACGCACTT
32660970 GTTAGTTAA-TTTA
1 GTTAGTTAAGTTTA
32660983 GTTAGTTAAGTTTA
1 GTTAGTTAAGTTTA
32660997 GTT
1 GTT
32661000 TTAATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.53
Consensus pattern (14 bp):
GTTAGTTAAGTTTA
Found at i:32669203 original size:20 final size:21
Alignment explanation
Indices: 32669155--32669203 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 21
32669145 AATAGTACAA
32669155 AATTTT-AT-TTTTAATTATT
1 AATTTTAATATTTTAATTATT
32669174 AATTTTAATATTTTAA-TATT
1 AATTTTAATATTTTAATTATT
32669194 -ATTTTCAATA
1 AATTTT-AATA
32669204 ATGAATTAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 11 0.41
20 10 0.37
21 6 0.22
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
AATTTTAATATTTTAATTATT
Found at i:32670300 original size:15 final size:15
Alignment explanation
Indices: 32670275--32670316 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
32670265 AAACCATAAA
32670275 TTTAGTTTTTAAT-AT
1 TTTA-TTTTTAATCAT
32670290 TTATATTTTT-ATCAT
1 TT-TATTTTTAATCAT
32670305 TTTATTTTTAAT
1 TTTATTTTTAAT
32670317 TAAATTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 9 0.38
15 13 0.54
16 2 0.08
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (15 bp):
TTTATTTTTAATCAT
Found at i:32670896 original size:26 final size:23
Alignment explanation
Indices: 32670851--32670897 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 23
32670841 CATAGATCTA
*
32670851 TCAATTTTGAAATTAAAATAACT
1 TCAATTTTGAAAATAAAATAACT
32670874 TCAATTTATGAGAAATAAGAATAA
1 TCAATTT-TGA-AAATAA-AATAA
32670898 TTAACAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 7 0.35
24 3 0.15
25 5 0.25
26 5 0.25
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (23 bp):
TCAATTTTGAAAATAAAATAACT
Found at i:32671868 original size:35 final size:35
Alignment explanation
Indices: 32671822--32671889 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
32671812 TATATATATA
32671822 AATATAATTTTCATAATCCTAATTCAA-TTCTAACT
1 AATATAATTTTCATAATCCTAATT-AAGTTCTAACT
* *
32671857 AATATAATTTTCGTAATCCTGATTAAGTTCTAA
1 AATATAATTTTCATAATCCTAATTAAGTTCTAA
32671890 GATAGTGTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 2 0.07
35 28 0.93
ACGTcount: A:0.38, C:0.15, G:0.04, T:0.43
Consensus pattern (35 bp):
AATATAATTTTCATAATCCTAATTAAGTTCTAACT
Found at i:32675319 original size:35 final size:35
Alignment explanation
Indices: 32675273--32675340 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 35
32675263 TATATATATA
32675273 AATATAATTTTCATAATCCTAATTCAA-TTCTAACT
1 AATATAATTTTCATAATCCTAATT-AAGTTCTAACT
*
32675308 AATATAATTTTCGTAATCCTAATTAAGTTCTAA
1 AATATAATTTTCATAATCCTAATTAAGTTCTAA
32675341 GATAGTGTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 2 0.06
35 29 0.94
ACGTcount: A:0.40, C:0.15, G:0.03, T:0.43
Consensus pattern (35 bp):
AATATAATTTTCATAATCCTAATTAAGTTCTAACT
Found at i:32675329 original size:20 final size:19
Alignment explanation
Indices: 32675273--32675330 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 19
32675263 TATATATATA
32675273 AATATAATTTTCATAATCCT
1 AATATAATTTTC-TAATCCT
32675293 AAT-TCAA--TTCTAA--CT
1 AATAT-AATTTTCTAATCCT
32675308 AATATAATTTTCGTAATCCT
1 AATATAATTTTC-TAATCCT
32675328 AAT
1 AAT
32675331 TAAGTTCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 14
0.69 0.00 0.31
Matches are distributed among these distances:
15 7 0.23
16 1 0.03
17 6 0.19
18 6 0.19
19 1 0.03
20 10 0.32
ACGTcount: A:0.40, C:0.16, G:0.02, T:0.43
Consensus pattern (19 bp):
AATATAATTTTCTAATCCT
Found at i:32676744 original size:24 final size:24
Alignment explanation
Indices: 32676716--32676767 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
32676706 TTAGTAGCTC
* *
32676716 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
32676740 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
32676764 AAAT
1 AAAT
32676768 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Done.