Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 73 of 132
Found at i:21386242 original size:29 final size:30
Alignment explanation
Indices: 21386198--21386255 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 30
21386188 GCTTATTATT
*
21386198 GTTCTAGAAAAAATAATTTTGATGAGATGA
1 GTTCTAGAAAAAATAATTTTGACGAGATGA
21386228 GTTCT-GAAAAAATAATTTTGACGAGATG
1 GTTCTAGAAAAAATAATTTTGACGAGATG
21386256 GATTTTGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 22 0.81
30 5 0.19
ACGTcount: A:0.41, C:0.05, G:0.21, T:0.33
Consensus pattern (30 bp):
GTTCTAGAAAAAATAATTTTGACGAGATGA
Found at i:21389922 original size:59 final size:59
Alignment explanation
Indices: 21389853--21390012 Score: 284
Period size: 59 Copynumber: 2.7 Consensus size: 59
21389843 GGGGTTCTCA
* *
21389853 ATTAAATGAAACAATATAAAAATAATGTGTACAAAAATATTCAAAAGAACTTTTATTTT
1 ATTAAATGAAACAATATAAAAATAATGTATACAAAAATATTCAAAAGAACTTCTATTTT
*
21389912 ATTAAATGAAACAATAGAAAAATAATGTATACAAAAATATTCAAAAGAACTTCTATTTT
1 ATTAAATGAAACAATATAAAAATAATGTATACAAAAATATTCAAAAGAACTTCTATTTT
*
21389971 ATTAAATGAAACCATATAAAAATAATGTATACAAAAATATTC
1 ATTAAATGAAACAATATAAAAATAATGTATACAAAAATATTC
21390013 GAAATAAATC
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 96 1.00
ACGTcount: A:0.54, C:0.08, G:0.06, T:0.31
Consensus pattern (59 bp):
ATTAAATGAAACAATATAAAAATAATGTATACAAAAATATTCAAAAGAACTTCTATTTT
Found at i:21392154 original size:55 final size:56
Alignment explanation
Indices: 21392095--21392343 Score: 277
Period size: 55 Copynumber: 4.5 Consensus size: 56
21392085 TTATGTATAT
21392095 TATTATGTATGTTATGTTTACTGTTATGTTTGTATATT-TGTATGTATGATATGTA
1 TATTATGTATGTTATGTTTACTGTTATGTTTGTATATTATGTATGTATGATATGTA
* *
21392150 TATTATGTATGTTATGTTTAGTGTTATGTTTGTATATT-TGTATGTATGTTATGTA
1 TATTATGTATGTTATGTTTACTGTTATGTTTGTATATTATGTATGTATGATATGTA
* *
21392205 TATTATATATGTTATGTTTACTGTTA----TGTATATTATGTATGTATAATTATGTA
1 TATTATGTATGTTATGTTTACTGTTATGTTTGTATATTATGTATGTATGA-TATGTA
* * * *
21392258 TATT-T-TAT-TTACAGTTATA-TGTATTATGTATGTATAATTCTGTATGTTATG-TATATA
1 TATTATGTATGTTA-TGTT-TACTG--TTATGTTTGTAT-ATTATGTATG-TATGATATGTA
21392315 TAATTATGTATGTTATGTTTACTGTTATG
1 T-ATTATGTATGTTATGTTTACTGTTATG
21392344 CATGTTATGT
Statistics
Matches: 166, Mismatches: 11, Indels: 31
0.80 0.05 0.15
Matches are distributed among these distances:
50 3 0.02
51 16 0.10
52 12 0.07
53 13 0.08
55 77 0.46
57 11 0.07
58 17 0.10
59 6 0.04
60 8 0.05
61 3 0.02
ACGTcount: A:0.26, C:0.02, G:0.16, T:0.56
Consensus pattern (56 bp):
TATTATGTATGTTATGTTTACTGTTATGTTTGTATATTATGTATGTATGATATGTA
Found at i:21392158 original size:18 final size:18
Alignment explanation
Indices: 21392027--21392360 Score: 134
Period size: 18 Copynumber: 18.6 Consensus size: 18
21392017 TTACTGTTTG
21392027 TGTATG-TATGTATAATTA
1 TGTATGTTATGTAT-ATTA
* *
21392045 TGTATGTTAGGTACTGTTA
1 TGTATGTTATGTA-TATTA
**
21392064 TGTATGTTATGGTCCA-TA
1 TGTATGTTAT-GTATATTA
*
21392082 CTGTTATG-TATAT-TATTA
1 -TG-TATGTTATGTATATTA
* * *
21392100 TGTATGTTATGTTTACTG
1 TGTATGTTATGTATATTA
21392118 T-TATGTT-TGTATATTTGTA
1 TGTATGTTATGTATA--T-TA
*
21392137 TGTATGATATGTATATTA
1 TGTATGTTATGTATATTA
* * *
21392155 TGTATGTTATGTTTAGTG
1 TGTATGTTATGTATATTA
21392173 T-TATGTT-TGTATATTTGTA
1 TGTATGTTATGTATA--T-TA
21392192 TGTATGTTATGTATATTA
1 TGTATGTTATGTATATTA
* * * *
21392210 TATATGTTATGTTTACTG
1 TGTATGTTATGTATATTA
*
21392228 T-TATGTATAT-TAT-GTA
1 TGTATGT-TATGTATATTA
*
21392244 TGTATAATTATGTATATT-
1 TGTAT-GTTATGTATATTA
*
21392262 T-TAT-TTACAGTTATATGTA
1 TGTATGTTA-TG-TATAT-TA
*
21392281 T-TATG-TATGTATAATTC
1 TGTATGTTATGTAT-ATTA
21392298 TGTATGTTATGTATATATAA
1 TGTATGTTATGTATAT-T-A
21392318 T-TATG-TATGT-TATGT-
1 TGTATGTTATGTATAT-TA
* *
21392333 T-TACTGTTATGCATGTTA
1 TGTA-TGTTATGTATATTA
21392351 TGTATGTTAT
1 TGTATGTTAT
21392361 ATTTACTGTT
Statistics
Matches: 240, Mismatches: 38, Indels: 76
0.68 0.11 0.21
Matches are distributed among these distances:
15 6 0.03
16 19 0.08
17 54 0.22
18 81 0.34
19 49 0.20
20 19 0.08
21 12 0.05
ACGTcount: A:0.26, C:0.03, G:0.17, T:0.54
Consensus pattern (18 bp):
TGTATGTTATGTATATTA
Found at i:21392178 original size:30 final size:29
Alignment explanation
Indices: 21392095--21392374 Score: 161
Period size: 30 Copynumber: 10.0 Consensus size: 29
21392085 TTATGTATAT
21392095 TATTATGTATGTTATGTTTACTGTTATGT-
1 TATTATGTATGTTATGTTTA-TGTTATGTA
* * *
21392124 T-TGTATATTTG-TATG--TATGATATGTA
1 TAT-TATGTATGTTATGTTTATGTTATGTA
21392150 TATTATGTATGTTATGTTTAGTGTTATGT-
1 TATTATGTATGTTATGTTTA-TGTTATGTA
* *
21392179 T-TGTATATTTG-TATG--TATGTTATGTA
1 TAT-TATGTATGTTATGTTTATGTTATGTA
*
21392205 TATTATATATGTTATGTTTACTGTTATGTA
1 TATTATGTATGTTATGTTTA-TGTTATGTA
** *
21392235 TATTATGTATG-TATAATTATGTATAT-TT
1 TATTATGTATGTTATGTTTATGT-TATGTA
* *
21392263 TATTTACAGT-T-ATATGTATTATG-TATGTA
1 TA-TTA-TGTATGTTATGT-TTATGTTATGTA
* *
21392292 TA--AT-TCTG-TATG-TTATG-TATATA
1 TATTATGTATGTTATGTTTATGTTATGTA
*
21392315 TAATTATGTATGTTATGTTTACTGTTATGCA
1 T-ATTATGTATGTTATGTTTA-TGTTATGTA
* *
21392346 TGTTATGTATGTTATATTTACTGTTATGT
1 TATTATGTATGTTATGTTTA-TGTTATGT
21392375 TTGTATGACT
Statistics
Matches: 196, Mismatches: 25, Indels: 59
0.70 0.09 0.21
Matches are distributed among these distances:
23 11 0.06
24 2 0.01
25 20 0.10
26 22 0.11
27 13 0.07
28 23 0.12
29 40 0.20
30 60 0.31
31 5 0.03
ACGTcount: A:0.26, C:0.03, G:0.16, T:0.56
Consensus pattern (29 bp):
TATTATGTATGTTATGTTTATGTTATGTA
Found at i:21392254 original size:23 final size:22
Alignment explanation
Indices: 21392085--21392363 Score: 138
Period size: 21 Copynumber: 12.7 Consensus size: 22
21392075 GTCCATACTG
* *
21392085 TTATGTATAT-TATTATGTATG
1 TTATGTATGTATATTATGTATA
*
21392106 TTATGTTTACTGT-TATGTTTGTATA
1 TTATG--TA-TGTATAT-TATGTATA
21392131 TT-TGTATGTATGA-TATGTATA
1 TTATGTATGTAT-ATTATGTATA
*
21392152 TTATGTATGT-TATGT-T-TAGTG
1 TTATGTATGTATAT-TATGTA-TA
*
21392173 TTATGTTTGTATATT-TGTAT-
1 TTATGTATGTATATTATGTATA
* * *
21392193 GTATGTTATGTATATTATATATG
1 TTATG-TATGTATATTATGTATA
*
21392216 TTATGT-T-TACTGTTATGTATA
1 TTATGTATGTA-TATTATGTATA
21392237 TTATGTATGTATAATTATGTATA
1 TTATGTATGTAT-ATTATGTATA
* * * *
21392260 TT-T-TATTTACAGTTATATGTA
1 TTATGTATGTATA-TTATGTATA
* *
21392281 TTATGTATGTATAATTCTGTATG
1 TTATGTATGTAT-ATTATGTATA
* *
21392304 TTATGTATATATAATTATGTATG
1 TTATGTATGTAT-ATTATGTATA
* * *
21392327 TTATGT-T-TACTGTTATGCATG
1 TTATGTATGTA-TATTATGTATA
21392348 TTATGTATGTTATATT
1 TTATGTATG-TATATT
21392364 TACTGTTATG
Statistics
Matches: 202, Mismatches: 29, Indels: 52
0.71 0.10 0.18
Matches are distributed among these distances:
20 10 0.05
21 86 0.43
22 28 0.14
23 60 0.30
24 10 0.05
25 8 0.04
ACGTcount: A:0.26, C:0.02, G:0.16, T:0.56
Consensus pattern (22 bp):
TTATGTATGTATATTATGTATA
Found at i:21392255 original size:14 final size:13
Alignment explanation
Indices: 21392086--21392258 Score: 94
Period size: 12 Copynumber: 13.2 Consensus size: 13
21392076 TCCATACTGT
21392086 TATGTATATTAT-
1 TATGTATATTATG
*
21392098 TATGTATGTTATG
1 TATGTATATTATG
*
21392111 T-T-TACTGTTATG
1 TATGTA-TATTATG
*
21392123 TTTGTATATT-TG
1 TATGTATATTATG
21392135 TATGTATGA-TATG
1 TATGTAT-ATTATG
*
21392148 TATAT-TATGTATG
1 TATGTATAT-TATG
*
21392161 TTATGTTTAGTGTTATG
1 -TATG--TA-TATTATG
*
21392178 TTTGTATATT-TG
1 TATGTATATTATG
*
21392190 TATGTATGTTATG
1 TATGTATATTATG
*
21392203 TATAT-TATATATG
1 TATGTATAT-TATG
* * *
21392216 TTATGTTTACTGT-
1 -TATGTATATTATG
21392229 TATGTATATTATG
1 TATGTATATTATG
21392242 TATGTATAATTATG
1 TATGTAT-ATTATG
21392256 TAT
1 TAT
21392259 ATTTTATTTA
Statistics
Matches: 124, Mismatches: 18, Indels: 36
0.70 0.10 0.20
Matches are distributed among these distances:
11 3 0.02
12 51 0.41
13 36 0.29
14 22 0.18
15 2 0.02
16 4 0.03
17 4 0.03
18 2 0.02
ACGTcount: A:0.25, C:0.01, G:0.17, T:0.57
Consensus pattern (13 bp):
TATGTATATTATG
Found at i:21392269 original size:44 final size:44
Alignment explanation
Indices: 21392194--21392307 Score: 131
Period size: 44 Copynumber: 2.6 Consensus size: 44
21392184 TATTTGTATG
* * * * *
21392194 TATGTTATGTAT-ATTATATATGTTATGTTTACTGTTATGTATAT
1 TATG-TATGTATAATTATGTATATTATATTTACAGTTATATATAT
* *
21392238 TATGTATGTATAATTATGTATATTTTATTTACAGTTATATGTAT
1 TATGTATGTATAATTATGTATATTATATTTACAGTTATATATAT
* *
21392282 TATGTATGTATAATTCTGTATGTTAT
1 TATGTATGTATAATTATGTATATTAT
21392308 GTATATATAA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 7 0.12
44 52 0.88
ACGTcount: A:0.29, C:0.03, G:0.13, T:0.55
Consensus pattern (44 bp):
TATGTATGTATAATTATGTATATTATATTTACAGTTATATATAT
Found at i:21392336 original size:67 final size:68
Alignment explanation
Indices: 21392231--21392380 Score: 173
Period size: 67 Copynumber: 2.2 Consensus size: 68
21392221 TTTACTGTTA
* * *
21392231 TGTATATTATGTATGTATAATTATGTATATTTTATTTACAGTTAT-ATGTATTATGTATG-TATA
1 TGTATGTTATGTATATATAATTATGTATATTATATTTACAGTTATCATG--TTATGTATGTTATA
21392294 ATT-C
64 ATTAC
* * * *
21392298 TGTATGTTATGTATATATAATTATGTATGTTATGTTTACTGTTATGCATGTTATGTATGTTATAT
1 TGTATGTTATGTATATATAATTATGTATATTATATTTACAGTTAT-CATGTTATGTATGTTATAA
21392363 TTAC
65 TTAC
21392367 TGTTATGTT-TGTAT
1 TG-TATGTTATGTAT
21392381 GACTGTTTAT
Statistics
Matches: 71, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
67 48 0.68
68 6 0.08
69 11 0.15
70 6 0.08
ACGTcount: A:0.27, C:0.03, G:0.15, T:0.55
Consensus pattern (68 bp):
TGTATGTTATGTATATATAATTATGTATATTATATTTACAGTTATCATGTTATGTATGTTATAAT
TAC
Found at i:21395657 original size:23 final size:22
Alignment explanation
Indices: 21395622--21395685 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 22
21395612 TAGATGAATC
21395622 GTTTTATTTAGATACAATGGATG
1 GTTTTA-TTAGATACAATGGATG
21395645 GTATTTATTAGATACAATGGATG
1 GT-TTTATTAGATACAATGGATG
*
21395668 GTTTTTTTAGATACAATG
1 GTTTTATTAGATACAATG
21395686 TTAAATTTGA
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
22 15 0.38
23 20 0.51
24 4 0.10
ACGTcount: A:0.31, C:0.05, G:0.20, T:0.44
Consensus pattern (22 bp):
GTTTTATTAGATACAATGGATG
Found at i:21396470 original size:16 final size:16
Alignment explanation
Indices: 21396451--21396481 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21396441 ACATGGTTTA
*
21396451 GGAAAATGATGGTGAG
1 GGAAAACGATGGTGAG
21396467 GGAAAACGATGGTGA
1 GGAAAACGATGGTGA
21396482 AATCGGAAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.03, G:0.42, T:0.16
Consensus pattern (16 bp):
GGAAAACGATGGTGAG
Found at i:21397829 original size:31 final size:32
Alignment explanation
Indices: 21397792--21397854 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
21397782 GAAATTATAA
**
21397792 AAAAATATTAATTAA-ATTATAAAAATGAAAT
1 AAAAATATTAAAAAATATTATAAAAATGAAAT
*
21397823 AAAAATATTAAAAAATATTTTAAAAATGAAAT
1 AAAAATATTAAAAAATATTATAAAAATGAAAT
21397855 TAACTATTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 13 0.46
32 15 0.54
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (32 bp):
AAAAATATTAAAAAATATTATAAAAATGAAAT
Found at i:21400634 original size:29 final size:29
Alignment explanation
Indices: 21400602--21400664 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
21400592 AAAACGAGAC
*
21400602 TTTTTGGA-TACCCGGGGGTAAAATGGTAA
1 TTTTTGGACT-CCCGGAGGTAAAATGGTAA
*
21400631 -TTTTGGACTCTCGGAGGTAAAATGGTAA
1 TTTTTGGACTCCCGGAGGTAAAATGGTAA
21400659 TTTTTG
1 TTTTTG
21400665 AAAGTTTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 24 0.80
29 6 0.20
ACGTcount: A:0.25, C:0.10, G:0.29, T:0.37
Consensus pattern (29 bp):
TTTTTGGACTCCCGGAGGTAAAATGGTAA
Found at i:21400692 original size:29 final size:30
Alignment explanation
Indices: 21400649--21400759 Score: 111
Period size: 30 Copynumber: 3.7 Consensus size: 30
21400639 TCTCGGAGGT
21400649 AAAATGGTAATTTTT-GAAAGTTTTTGGGTTA
1 AAAATGG-AATTTTTAG-AAGTTTTTGGGTTA
**
21400680 AAAATGGAATTTTTAGAAGTTCGAT-GG-TA
1 AAAATGGAATTTTTAGAAGTT-TTTGGGTTA
** * *
21400709 AAAATATAATTTTTAGAAGTTTTGGGGTCA
1 AAAATGGAATTTTTAGAAGTTTTTGGGTTA
*
21400739 AAAATGGAATTTTTGGAAGTT
1 AAAATGGAATTTTTAGAAGTT
21400760 CGAGGGTTGA
Statistics
Matches: 65, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
29 23 0.35
30 33 0.51
31 9 0.14
ACGTcount: A:0.36, C:0.02, G:0.23, T:0.40
Consensus pattern (30 bp):
AAAATGGAATTTTTAGAAGTTTTTGGGTTA
Found at i:21401638 original size:22 final size:21
Alignment explanation
Indices: 21401601--21401641 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
21401591 TGGAGGTTTC
21401601 AAAACTTTTTCTTTTTCTTTT
1 AAAACTTTTTCTTTTTCTTTT
21401622 AAAACTATTTT-TGTTTTCTT
1 AAAACT-TTTTCT-TTTTCTT
21401642 CTTTATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.22, C:0.12, G:0.02, T:0.63
Consensus pattern (21 bp):
AAAACTTTTTCTTTTTCTTTT
Found at i:21402723 original size:17 final size:17
Alignment explanation
Indices: 21402698--21402736 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
21402688 AATTTTCAAT
21402698 TTAAATTTAAAATAAAC
1 TTAAATTTAAAATAAAC
* *
21402715 TTAATTTTAAAATAAAT
1 TTAAATTTAAAATAAAC
21402732 TTAAA
1 TTAAA
21402737 CTTTGTTGGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAATTTAAAATAAAC
Found at i:21415908 original size:49 final size:49
Alignment explanation
Indices: 21415817--21415955 Score: 122
Period size: 49 Copynumber: 2.8 Consensus size: 49
21415807 TTGCAACTCA
* * * * * *
21415817 GGCTCCCAGTTCACGATGGTTATACGGTCATGGGTT-GAAGTATAGCTAG
1 GGCTCCTAGTTGACGGTGGTTATGC-GTCACGGGTTAGAAGTATAACTAG
* *
21415866 GTCTCCTAGTTGACGGTGGTTATGCAGTCACGGGTTAG-AGTATAACTCG
1 GGCTCCTAGTTGACGGTGGTTATGC-GTCACGGGTTAGAAGTATAACTAG
** **
21415915 GGAGCCTAGTTGATAGTGGTTATGCGATCACGGGTTA-AAGT
1 GGCTCCTAGTTGACGGTGGTTATGCG-TCACGGGTTAGAAGT
21415956 TTCATGATAT
Statistics
Matches: 73, Mismatches: 14, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
48 1 0.01
49 71 0.97
50 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (49 bp):
GGCTCCTAGTTGACGGTGGTTATGCGTCACGGGTTAGAAGTATAACTAG
Found at i:21418657 original size:8 final size:8
Alignment explanation
Indices: 21418642--21418679 Score: 67
Period size: 8 Copynumber: 4.8 Consensus size: 8
21418632 ACATTTACAA
21418642 ACATATAT
1 ACATATAT
*
21418650 AAATATAT
1 ACATATAT
21418658 ACATATAT
1 ACATATAT
21418666 ACATATAT
1 ACATATAT
21418674 ACATAT
1 ACATAT
21418680 CACAAAAGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.37
Consensus pattern (8 bp):
ACATATAT
Found at i:21419196 original size:40 final size:40
Alignment explanation
Indices: 21419144--21419283 Score: 150
Period size: 40 Copynumber: 3.6 Consensus size: 40
21419134 AAAAATTTAC
*
21419144 GCCCAGCGCTAGTCGGATAAACCAAAGTTATTAAAAGTGA
1 GCCCAGCTCTAGTCGGATAAACCAAAGTTATTAAAAGTGA
* * *
21419184 GCCCAGCTCTAGTTGGATAAACCAACA-ATATT-----TGT
1 GCCCAGCTCTAGTCGGATAAACCAA-AGTTATTAAAAGTGA
* *
21419219 GCCCA-ATGCTAGTCGGTTAAACCAAAGTTATTAAAAGTGA
1 GCCCAGCT-CTAGTCGGATAAACCAAAGTTATTAAAAGTGA
*
21419259 GCCCAGCTCTAGTTGGATAAACCAA
1 GCCCAGCTCTAGTCGGATAAACCAA
21419284 CAATATTTGC
Statistics
Matches: 79, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
34 2 0.03
35 26 0.33
40 49 0.62
41 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (40 bp):
GCCCAGCTCTAGTCGGATAAACCAAAGTTATTAAAAGTGA
Found at i:21419231 original size:35 final size:35
Alignment explanation
Indices: 21419192--21419306 Score: 99
Period size: 35 Copynumber: 3.1 Consensus size: 35
21419182 GAGCCCAGCT
*
21419192 CTAGTTGGATAAACCAACAATATTTGTGCCCAATG
1 CTAGTTGGATAAACCAACAATATTTGAGCCCAATG
* * * *
21419227 CTAGTCGGTTAAACCAA-AGTTATTAAAAGTGAGCCCAGCT-
1 CTAGTTGGATAAACCAACA-ATATT-----TGAGCCCA-ATG
*
21419267 CTAGTTGGATAAACCAACAATATTTGCGCCCAATG
1 CTAGTTGGATAAACCAACAATATTTGAGCCCAATG
21419302 CTAGT
1 CTAGT
21419307 CAGTTAAACC
Statistics
Matches: 61, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
34 2 0.03
35 31 0.51
40 26 0.43
41 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (35 bp):
CTAGTTGGATAAACCAACAATATTTGAGCCCAATG
Found at i:21419246 original size:75 final size:75
Alignment explanation
Indices: 21419151--21419316 Score: 305
Period size: 75 Copynumber: 2.2 Consensus size: 75
21419141 TACGCCCAGC
*
21419151 GCTAGTCGGATAAACCAAAGTTATTAAAAGTGAGCCCAGCTCTAGTTGGATAAACCAACAATATT
1 GCTAGTCGGTTAAACCAAAGTTATTAAAAGTGAGCCCAGCTCTAGTTGGATAAACCAACAATATT
*
21419216 TGTGCCCAAT
66 TGCGCCCAAT
21419226 GCTAGTCGGTTAAACCAAAGTTATTAAAAGTGAGCCCAGCTCTAGTTGGATAAACCAACAATATT
1 GCTAGTCGGTTAAACCAAAGTTATTAAAAGTGAGCCCAGCTCTAGTTGGATAAACCAACAATATT
21419291 TGCGCCCAAT
66 TGCGCCCAAT
*
21419301 GCTAGTCAGTTAAACC
1 GCTAGTCGGTTAAACC
21419317 GATGAATGTG
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 88 1.00
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (75 bp):
GCTAGTCGGTTAAACCAAAGTTATTAAAAGTGAGCCCAGCTCTAGTTGGATAAACCAACAATATT
TGCGCCCAAT
Found at i:21419458 original size:108 final size:109
Alignment explanation
Indices: 21419256--21419458 Score: 255
Period size: 108 Copynumber: 1.9 Consensus size: 109
21419246 TTATTAAAAG
* * * **
21419256 TGAGCCCAGCTCTAGTTGGATAAACCAACAATATTTGCGCCCAATGCTAGTCAGTTAAACCGATG
1 TGAGCCCAGCTCTAGTTGGATAAACCAACAATATTTGCACCCAACGCTAGTCAGATAAACCGACA
21419321 AATGTGTGCCCAACACTACTCAGATAAACTTATGAAATAAATAA
66 AATGTGTGCCCAACACTACTCAGATAAACTTATGAAATAAATAA
* * ** * * * *
21419365 TGAGCCTAGCTCTAGTTGGATTAACCAATGATA-TTGCACCTAGCGCTAGTCGGATGAACCGACA
1 TGAGCCCAGCTCTAGTTGGATAAACCAACAATATTTGCACCCAACGCTAGTCAGATAAACCGACA
* * *
21419429 AATGTGTGCCCATCATTAGTCAGATAAACT
66 AATGTGTGCCCAACACTACTCAGATAAACT
21419459 GACGAAAGTT
Statistics
Matches: 78, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
108 49 0.63
109 29 0.37
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (109 bp):
TGAGCCCAGCTCTAGTTGGATAAACCAACAATATTTGCACCCAACGCTAGTCAGATAAACCGACA
AATGTGTGCCCAACACTACTCAGATAAACTTATGAAATAAATAA
Found at i:21422406 original size:85 final size:85
Alignment explanation
Indices: 21422254--21422411 Score: 201
Period size: 85 Copynumber: 1.9 Consensus size: 85
21422244 AACGCTCCAC
* * * * * * *
21422254 ATACTTGTGTTGTCATAGGTACGTCACATGATCATCCAAGATTGGATTCTGGCCTAATATTTGAC
1 ATACTCGTGTTGTCATAAGTACATCACAAGATCATCCAAGATTGGATTATGGCATAATATTTAAC
21422319 ATTATCTTACACATTTTGAA
66 ATTATCTTACACATTTTGAA
** * *
21422339 ATACTCGTGTTGTTGTAAGTACATCACAAGATCATCCCAA-ATTGGATTATGGCATGATCTTTAA
1 ATACTCGTGTTGTCATAAGTACATCACAAGATCAT-CCAAGATTGGATTATGGCATAATATTTAA
21422403 CATTATCTT
65 CATTATCTT
21422412 CTTACCTATG
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
85 57 0.93
86 4 0.07
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (85 bp):
ATACTCGTGTTGTCATAAGTACATCACAAGATCATCCAAGATTGGATTATGGCATAATATTTAAC
ATTATCTTACACATTTTGAA
Found at i:21428807 original size:10 final size:10
Alignment explanation
Indices: 21428792--21428820 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
21428782 ATTTTAAAAC
21428792 GTGTAGTTTT
1 GTGTAGTTTT
21428802 GTGTAGTTTT
1 GTGTAGTTTT
21428812 GTGTAGTTT
1 GTGTAGTTT
21428821 AAAGGTTGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.10, C:0.00, G:0.31, T:0.59
Consensus pattern (10 bp):
GTGTAGTTTT
Found at i:21433156 original size:29 final size:29
Alignment explanation
Indices: 21433124--21433453 Score: 204
Period size: 29 Copynumber: 11.2 Consensus size: 29
21433114 TTTGAAAAGT
* *
21433124 TTTAGGGGTAAAAATGTTATTTTGGGAAA
1 TTTAGGGGTAAAAATGTAATTTTTGGAAA
* * *
21433153 TTTA-GGGTAAAGATATGATTTTTGG-AA
1 TTTAGGGGTAAAAATGTAATTTTTGGAAA
* * * * *
21433180 GTTCGGGGGAAAAAGTGTGATTTTTGGAAG
1 TTTAGGGGTAAAAA-TGTAATTTTTGGAAA
* *
21433210 TTTA-GGGCAAAAATGTGATTTTTGG-AA
1 TTTAGGGGTAAAAATGTAATTTTTGGAAA
* * * * *
21433237 GTTCGAGGGAAAAAATGGAATTTGT-GAAA
1 TTTAG-GGGTAAAAATGTAATTTTTGGAAA
* * * * *
21433266 GTTCGAGGGCAAAAATGGAATTTTTAAGAAA
1 TTTAG-GGGTAAAAATGTAATTTTT-GGAAA
*
21433297 TTTAGGGGTTAAAATGTAATTTTTGGAAA
1 TTTAGGGGTAAAAATGTAATTTTTGGAAA
*
21433326 TTTAGGGGTTAAAATGTAATTTTTGGAAA
1 TTTAGGGGTAAAAATGTAATTTTTGGAAA
* * ** *
21433355 GTTTAAGGGTTAAAATGTAATTTTCAAGAAG
1 -TTTAGGGGTAAAAATGTAATTTT-TGGAAA
* ** *
21433386 TTTAGGGGTTAAAATACAATTTTTGAAAA
1 TTTAGGGGTAAAAATGTAATTTTTGGAAA
* * *
21433415 GTTT-GGGGATCAAAATGCAATTTTTAGAAA
1 -TTTAGGGG-TAAAAATGTAATTTTTGGAAA
21433445 GTTTTAGGG
1 --TTTAGGG
21433454 TCAAAATATG
Statistics
Matches: 243, Mismatches: 44, Indels: 25
0.78 0.14 0.08
Matches are distributed among these distances:
27 7 0.03
28 37 0.15
29 102 0.42
30 81 0.33
31 13 0.05
32 3 0.01
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.35
Consensus pattern (29 bp):
TTTAGGGGTAAAAATGTAATTTTTGGAAA
Found at i:21433229 original size:57 final size:56
Alignment explanation
Indices: 21433128--21433353 Score: 179
Period size: 57 Copynumber: 3.9 Consensus size: 56
21433118 AAAAGTTTTA
* * * * * *
21433128 GGGGTAAAAATGTTATTTTGGGAAATTTAGGGTAAAGATATGATTTTTGGAAGTTC
1 GGGGGAAAAATGTGATTTTTGGAAATTTAGGGCAAAAATGTGATTTTTGGAAGTTC
*
21433184 GGGGGAAAAAGTGTGATTTTTGGAAGTTTAGGGCAAAAATGTGATTTTTGGAAGTTC
1 GGGGGAAAAA-TGTGATTTTTGGAAATTTAGGGCAAAAATGTGATTTTTGGAAGTTC
* * * * * *
21433241 GAGGGAAAAAATG-GA-ATTTGTGAAAGTTCGAGGGCAAAAATG-GAATTTTTAAGAAATTTA
1 G-GGGGAAAAATGTGATTTTTG-GAAA-TT-TAGGGCAAAAATGTG-ATTTTT--GGAAGTTC
** * ** *
21433301 GGGGTTAAAATGTAATTTTTGGAAATTTAGGGGTTAAAATGTAATTTTTGGAA
1 GGGGGAAAAATGTGATTTTTGGAAATTTA-GGGCAAAAATGTGATTTTTGGAA
21433354 AGTTTAAGGG
Statistics
Matches: 135, Mismatches: 23, Indels: 23
0.75 0.13 0.13
Matches are distributed among these distances:
55 4 0.03
56 14 0.10
57 49 0.36
58 27 0.20
59 26 0.19
60 11 0.08
61 4 0.03
ACGTcount: A:0.35, C:0.02, G:0.29, T:0.34
Consensus pattern (56 bp):
GGGGGAAAAATGTGATTTTTGGAAATTTAGGGCAAAAATGTGATTTTTGGAAGTTC
Found at i:21433458 original size:30 final size:30
Alignment explanation
Indices: 21433277--21433479 Score: 193
Period size: 30 Copynumber: 6.8 Consensus size: 30
21433267 TTCGAGGGCA
*
21433277 AAAATGGAATTTTTAAGAAA-TTTAGGGGTT
1 AAAATGTAATTTTT-AGAAAGTTTAGGGGTT
*
21433307 AAAATGTAATTTTTGGAAA-TTTAGGGGTT
1 AAAATGTAATTTTTAGAAAGTTTAGGGGTT
* *
21433336 AAAATGTAATTTTTGGAAAGTTTAAGGGTT
1 AAAATGTAATTTTTAGAAAGTTTAGGGGTT
*
21433366 AAAATGTAATTTTCA-AGAAGTTTAGGGGTT
1 AAAATGTAATTTTTAGA-AAGTTTAGGGGTT
** *
21433396 AAAATACAATTTTT-GAAAAGTTT-GGGGATC
1 AAAATGTAATTTTTAG-AAAGTTTAGGGG-TT
* *
21433426 AAAATGCAATTTTTAGAAAGTTTTA-GGGTC
1 AAAATGTAATTTTTAGAAAG-TTTAGGGGTT
* * * *
21433456 AAAATATGATTTTTTGAGAGTTTA
1 AAAATGTAATTTTTAGAAAGTTTA
21433480 AGGACCTTTT
Statistics
Matches: 149, Mismatches: 16, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
29 42 0.28
30 99 0.66
31 8 0.05
ACGTcount: A:0.37, C:0.02, G:0.22, T:0.38
Consensus pattern (30 bp):
AAAATGTAATTTTTAGAAAGTTTAGGGGTT
Found at i:21434609 original size:16 final size:16
Alignment explanation
Indices: 21434585--21434624 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
21434575 TTATTAAAAC
* *
21434585 ATTATTTAATAAATTT
1 ATTAATTAATAAACTT
*
21434601 ATTAATTAATATACTT
1 ATTAATTAATAAACTT
21434617 ATTAATTA
1 ATTAATTA
21434625 TATCTAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTAATTAATAAACTT
Found at i:21435294 original size:13 final size:14
Alignment explanation
Indices: 21435276--21435306 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
21435266 TTGTTAGGAC
21435276 AATTGGGTTTT-GT
1 AATTGGGTTTTGGT
21435289 AATTGGGTTTTGGT
1 AATTGGGTTTTGGT
21435303 AATT
1 AATT
21435307 TGGACCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.52
Consensus pattern (14 bp):
AATTGGGTTTTGGT
Found at i:21435372 original size:23 final size:22
Alignment explanation
Indices: 21435338--21435384 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
21435328 GGACATTATT
*
21435338 AATTTAAATAAATTTAAACTTA
1 AATTTAAATAAATTTAAACCTA
21435360 AATTTATAATAAATTTAAACCTA
1 AATTTA-AATAAATTTAAACCTA
21435383 AA
1 AA
21435385 ATAAATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.38
Consensus pattern (22 bp):
AATTTAAATAAATTTAAACCTA
Found at i:21435374 original size:11 final size:10
Alignment explanation
Indices: 21435338--21435378 Score: 55
Period size: 10 Copynumber: 3.8 Consensus size: 10
21435328 GGACATTATT
21435338 AATTTAAATA
1 AATTTAAATA
21435348 AATTTAAACTTA
1 AATTTAAA--TA
21435360 AATTTATAATA
1 AATTTA-AATA
21435371 AATTTAAA
1 AATTTAAA
21435379 CCTAAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 10 0.36
11 8 0.29
12 8 0.29
13 2 0.07
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (10 bp):
AATTTAAATA
Found at i:21435377 original size:17 final size:17
Alignment explanation
Indices: 21435352--21435397 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
21435342 TAAATAAATT
* *
21435352 TAAACTTAAATTTATAA
1 TAAATTTAAATTTAAAA
**
21435369 TAAATTTAAACCTAAAA
1 TAAATTTAAATTTAAAA
21435386 TAAATTTAAATT
1 TAAATTTAAATT
21435398 CTGTTGGGCT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:21440698 original size:26 final size:26
Alignment explanation
Indices: 21440646--21440699 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
21440636 CACCCAGAAA
*
21440646 TGTCACTGCATGAACATGTCTAGAAT
1 TGTCACTGCATGAACATGTCTAAAAT
* *
21440672 TGTCGCTGCATGAACGTGTAC-AAAAT
1 TGTCACTGCATGAACATGT-CTAAAAT
21440698 TG
1 TG
21440700 CACCCAGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 23 0.96
27 1 0.04
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (26 bp):
TGTCACTGCATGAACATGTCTAAAAT
Found at i:21441519 original size:16 final size:16
Alignment explanation
Indices: 21441498--21441528 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21441488 TTGTGGATCT
21441498 CATTTTACCTTTATTA
1 CATTTTACCTTTATTA
*
21441514 CATTTTATCTTTATT
1 CATTTTACCTTTATT
21441529 TTCATATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (16 bp):
CATTTTACCTTTATTA
Found at i:21445573 original size:21 final size:20
Alignment explanation
Indices: 21445544--21445618 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 20
21445534 GGAGTTTTTA
*
21445544 GTATCGGTAGAAGTAAGACTT
1 GTATCGGTAGAAGT-ACACTT
*
21445565 GTTTCGGTAGCAGAGT-CACTT
1 GTATCGGTAG-A-AGTACACTT
*
21445586 GTATCGGTAGAACTATCACTT
1 GTATCGGTAGAAGTA-CACTT
21445607 GTATCGGTAGAA
1 GTATCGGTAGAA
21445619 ATCTGCACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
19 2 0.04
20 1 0.02
21 39 0.85
22 1 0.02
23 3 0.07
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.31
Consensus pattern (20 bp):
GTATCGGTAGAAGTACACTT
Found at i:21445596 original size:92 final size:92
Alignment explanation
Indices: 21445398--21445597 Score: 314
Period size: 92 Copynumber: 2.2 Consensus size: 92
21445388 TAGTTTGTGT
*
21445398 ACTTGTATCGGTAAAAGTTGTAGGGTGAGACTTTTTAGCTCTCTGGAGTTTTTAGTATCGGTAGA
1 ACTTGTATCGGTAGAAGTTGTAGGGTGAGACTTTTTAGCTCTCTGGAGTTTTTAGTATCGGTAGA
*
21445463 AGTTAGACTTGTTTCAGGAGAGGAGTC
66 AGTAAGACTTGTTTCAGGAGAGGAGTC
** * *
21445490 ACTTGTATTAGTAGAAGTTTTAGGGTGAGACTTTTTAGCTTTCTGGAGTTTTTAGTATCGGTAGA
1 ACTTGTATCGGTAGAAGTTGTAGGGTGAGACTTTTTAGCTCTCTGGAGTTTTTAGTATCGGTAGA
21445555 AGTAAGACTTGTTTC-GGTAGCA-GAGTC
66 AGTAAGACTTGTTTCAGG-AG-AGGAGTC
21445582 ACTTGTATCGGTAGAA
1 ACTTGTATCGGTAGAA
21445598 CTATCACTTG
Statistics
Matches: 98, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
91 2 0.02
92 95 0.97
93 1 0.01
ACGTcount: A:0.24, C:0.10, G:0.28, T:0.37
Consensus pattern (92 bp):
ACTTGTATCGGTAGAAGTTGTAGGGTGAGACTTTTTAGCTCTCTGGAGTTTTTAGTATCGGTAGA
AGTAAGACTTGTTTCAGGAGAGGAGTC
Found at i:21449900 original size:26 final size:26
Alignment explanation
Indices: 21449871--21449926 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
21449861 AGAGTGTTAT
*
21449871 TCTGTCTGGGCTCGTATGAGCTAAAC
1 TCTGTCTGGGCTAGTATGAGCTAAAC
21449897 TCTGTCTGGGCTAGTATGAGCTAAAC
1 TCTGTCTGGGCTAGTATGAGCTAAAC
21449923 TCTG
1 TCTG
21449927 CTCTAGGTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (26 bp):
TCTGTCTGGGCTAGTATGAGCTAAAC
Found at i:21453556 original size:21 final size:21
Alignment explanation
Indices: 21453532--21453572 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
21453522 ATATTCTTTC
*
21453532 AAATTATATTTGA-ATTTAAAG
1 AAATTA-AATTGATATTTAAAG
21453553 AAATTAAATTGATATTTAAA
1 AAATTAAATTGATATTTAAA
21453573 TATTGTATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (21 bp):
AAATTAAATTGATATTTAAAG
Found at i:21454291 original size:28 final size:28
Alignment explanation
Indices: 21454259--21454392 Score: 130
Period size: 28 Copynumber: 4.8 Consensus size: 28
21454249 ATTTTGTTTT
21454259 TGGCTCGAAAGAGCGTTATTCTGGACTC
1 TGGCTCGAAAGAGCGTTATTCTGGACTC
* * **
21454287 TGGCTCGTAAGAGCGATACTT-T-GTTTC
1 TGGCTCGAAAGAGCGTTA-TTCTGGACTC
* * * * *
21454314 TGGCTCAAAAGAGCATTACTCTGGATTT
1 TGGCTCGAAAGAGCGTTATTCTGGACTC
21454342 TGGCTCGAAAGAGCGTTACTT-TGGACTC
1 TGGCTCGAAAGAGCGTTA-TTCTGGACTC
*
21454370 TGGCTCGAAAGGGACGTTATTCT
1 TGGCTCGAAAGAG-CGTTATTCT
21454393 ATTTCTGGAT
Statistics
Matches: 83, Mismatches: 17, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
26 1 0.01
27 18 0.22
28 55 0.66
29 9 0.11
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.31
Consensus pattern (28 bp):
TGGCTCGAAAGAGCGTTATTCTGGACTC
Found at i:21454337 original size:55 final size:55
Alignment explanation
Indices: 21454251--21454364 Score: 156
Period size: 55 Copynumber: 2.1 Consensus size: 55
21454241 TAATAAATAT
* * * * *
21454251 TTTGTTTTTGGCTCGAAAGAGCGTTATTCTGGACTCTGGCTCGTAAGAGCGATAC
1 TTTGTTTCTGGCTCAAAAGAGCATTACTCTGGACTCTGGCTCGAAAGAGCGATAC
* * *
21454306 TTTGTTTCTGGCTCAAAAGAGCATTACTCTGGATTTTGGCTCGAAAGAGCGTTAC
1 TTTGTTTCTGGCTCAAAAGAGCATTACTCTGGACTCTGGCTCGAAAGAGCGATAC
21454361 TTTG
1 TTTG
21454365 GACTCTGGCT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (55 bp):
TTTGTTTCTGGCTCAAAAGAGCATTACTCTGGACTCTGGCTCGAAAGAGCGATAC
Found at i:21454430 original size:83 final size:83
Alignment explanation
Indices: 21454260--21454420 Score: 191
Period size: 83 Copynumber: 1.9 Consensus size: 83
21454250 TTTTGTTTTT
* * *
21454260 GGCTCGAAAGAGCGTTATTCTGGACTCTGGCTCGTAAGAGCGATACTTTGTTTCTGGCTCAAAAG
1 GGCTCGAAAGAGCGTTATTCTGGACTCTGGCTCGAAAGAGCGATACTTTATTTCTGGATCAAAAG
* *
21454325 AGCATTACTCTGGATTTT
66 AGCAATACTCTGGATTTG
* * *
21454343 GGCTCGAAAGAGCGTTACTT-TGGACTCTGGCTCGAAAGGGACGTTA-TTCTATTTCTGGATCAT
1 GGCTCGAAAGAGCGTTA-TTCTGGACTCTGGCTCGAAAGAG-CGATACTT-TATTTCTGGATCAA
* *
21454406 ATGGGCAATACTCTG
63 AAGAGCAATACTCTG
21454421 TTCTGGGCTC
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
83 37 0.56
84 29 0.44
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (83 bp):
GGCTCGAAAGAGCGTTATTCTGGACTCTGGCTCGAAAGAGCGATACTTTATTTCTGGATCAAAAG
AGCAATACTCTGGATTTG
Found at i:21454573 original size:18 final size:17
Alignment explanation
Indices: 21454545--21454581 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
21454535 GGTAAATTTA
*
21454545 ACTAACTTTGTGAGCTT
1 ACTAACTTTGTAAGCTT
21454562 ACTAAGCTTTGTAAGCTT
1 ACTAA-CTTTGTAAGCTT
21454580 AC
1 AC
21454582 CTGTGAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (17 bp):
ACTAACTTTGTAAGCTT
Found at i:21479668 original size:30 final size:31
Alignment explanation
Indices: 21479609--21479669 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
21479599 TCAGTTATTT
*
21479609 TTTTGTCACTTTTTGATAACGTTAGTGACTG
1 TTTTGTCACTTTTTCATAACGTTAGTGACTG
*
21479640 TTTTGTCAGTTTTTCA-AA-GTTGAGTGACTG
1 TTTTGTCACTTTTTCATAACGTT-AGTGACTG
21479670 AAATGAAACC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 3 0.11
30 10 0.37
31 14 0.52
ACGTcount: A:0.20, C:0.11, G:0.21, T:0.48
Consensus pattern (31 bp):
TTTTGTCACTTTTTCATAACGTTAGTGACTG
Found at i:21483968 original size:93 final size:93
Alignment explanation
Indices: 21483850--21484072 Score: 315
Period size: 93 Copynumber: 2.4 Consensus size: 93
21483840 ATTGGATCTG
* * *
21483850 GTGCTTCACTCCACTCCACTGTAACCTCAGGGACGTTGAAATCTGCTTCATTATTTTAATCCGAC
1 GTGCTTCACTCCACTCCATTGTAACCTTAGGGACGTTGAAATCTGCTTCATTATTTTAATCCAAC
21483915 CCACTGAAACTC-AGAGGTATAGGATTTA
66 CCACTGAAACTCAAG-GGTATAGGATTTA
* * * * * * *
21483943 GTGCTTCATTCCACTCCATTATAACCTTAAGGACATTGAGATCTGCTTCATTGTTTTAATCCAAT
1 GTGCTTCACTCCACTCCATTGTAACCTTAGGGACGTTGAAATCTGCTTCATTATTTTAATCCAAC
*
21484008 CCACTGTAACTCAAGGGTATAGGATTTA
66 CCACTGAAACTCAAGGGTATAGGATTTA
21484036 GT-CTTTCACTCCACTCCATTGTAACCTTAGGGACGTT
1 GTGC-TTCACTCCACTCCATTGTAACCTTAGGGACGTT
21484073 AAGATGGGCC
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
92 1 0.01
93 110 0.97
94 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (93 bp):
GTGCTTCACTCCACTCCATTGTAACCTTAGGGACGTTGAAATCTGCTTCATTATTTTAATCCAAC
CCACTGAAACTCAAGGGTATAGGATTTA
Found at i:21495857 original size:24 final size:23
Alignment explanation
Indices: 21495809--21495857 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
21495799 ATTTGATTTT
* *
21495809 AAAAACATTAAAAGATTTTTCAA
1 AAAAACAATAAAAGAATTTTCAA
21495832 AAAAACAAATAAAAGCAATTTT-AA
1 AAAAAC-AATAAAAG-AATTTTCAA
21495856 AA
1 AA
21495858 TAATTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 6 0.27
24 11 0.50
25 5 0.23
ACGTcount: A:0.63, C:0.08, G:0.04, T:0.24
Consensus pattern (23 bp):
AAAAACAATAAAAGAATTTTCAA
Found at i:21496864 original size:19 final size:20
Alignment explanation
Indices: 21496826--21496868 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
21496816 ATAAAATAAA
* *
21496826 ATAAACTATATAGGATATAT
1 ATAAAATATATAGCATATAT
21496846 ATAAAATATATA-CATATAT
1 ATAAAATATATAGCATATAT
21496865 ATAA
1 ATAA
21496869 TCAAACAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.35
Consensus pattern (20 bp):
ATAAAATATATAGCATATAT
Found at i:21503292 original size:21 final size:21
Alignment explanation
Indices: 21503267--21503325 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 21
21503257 TTAACCAACT
21503267 AGCTAACTACTAACTTAACAA
1 AGCTAACTACTAACTTAACAA
21503288 AGCTAACTGCTAACTAACTTAACAA
1 AGCTAA---CT-ACTAACTTAACAA
* *
21503313 AGGTAACTGCTAA
1 AGCTAACTACTAA
21503326 TAACTAACTA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
21 10 0.31
22 2 0.06
24 2 0.06
25 18 0.56
ACGTcount: A:0.44, C:0.22, G:0.10, T:0.24
Consensus pattern (21 bp):
AGCTAACTACTAACTTAACAA
Found at i:21503307 original size:25 final size:25
Alignment explanation
Indices: 21503275--21503330 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
21503265 CTAGCTAACT
21503275 ACTAACTTAACAAAGCTAACTGCTA
1 ACTAACTTAACAAAGCTAACTGCTA
*
21503300 ACTAACTTAACAAAGGTAACTGCTA
1 ACTAACTTAACAAAGCTAACTGCTA
21503325 A-TAACT
1 ACTAACT
21503331 AACTATCTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 5 0.17
25 25 0.83
ACGTcount: A:0.45, C:0.21, G:0.09, T:0.25
Consensus pattern (25 bp):
ACTAACTTAACAAAGCTAACTGCTA
Found at i:21504400 original size:85 final size:85
Alignment explanation
Indices: 21504299--21504470 Score: 326
Period size: 85 Copynumber: 2.0 Consensus size: 85
21504289 AAAAAAGAAG
21504299 TAAATACTAAACTTCTATAAGCAAAAATGCATCTTTTCCAAAAAGTTTTCCATTTGAAATAATAT
1 TAAATACTAAACTTCTATAAGCAAAAATGCATCTTTTCCAAAAAGTTTTCCATTTGAAATAATAT
*
21504364 TCTTAATTGCTTTTAAATAA
66 TCTTAACTGCTTTTAAATAA
*
21504384 TAAATACTAAATTTCTATAAGCAAAAATGCATCTTTTCCAAAAAGTTTTCCATTTGAAATAATAT
1 TAAATACTAAACTTCTATAAGCAAAAATGCATCTTTTCCAAAAAGTTTTCCATTTGAAATAATAT
21504449 TCTTAACTGCTTTTAAATAA
66 TCTTAACTGCTTTTAAATAA
21504469 TA
1 TA
21504471 TTTTTTATTA
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.41, C:0.14, G:0.06, T:0.39
Consensus pattern (85 bp):
TAAATACTAAACTTCTATAAGCAAAAATGCATCTTTTCCAAAAAGTTTTCCATTTGAAATAATAT
TCTTAACTGCTTTTAAATAA
Found at i:21507984 original size:43 final size:43
Alignment explanation
Indices: 21507923--21508009 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
21507913 TAGTACATGT
*
21507923 CATACGAACATGTGATAGTGTGATACAGATGAATCCGATTTAA
1 CATACGAACATGTGATAGTGTGATACAAATGAATCCGATTTAA
* *
21507966 CATACGAACCTGTGATAGTGTGATGCAAATGAATCCGATTTAA
1 CATACGAACATGTGATAGTGTGATACAAATGAATCCGATTTAA
21508009 C
1 C
21508010 CATAGTTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.28
Consensus pattern (43 bp):
CATACGAACATGTGATAGTGTGATACAAATGAATCCGATTTAA
Found at i:21526027 original size:19 final size:19
Alignment explanation
Indices: 21525999--21526048 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
21525989 GGTAATCAAG
*
21525999 AGAAGGAGGAAGAAAAAGA
1 AGAAGAAGGAAGAAAAAGA
21526018 AGAAGAAGGAAG--AAAGA
1 AGAAGAAGGAAGAAAAAGA
21526035 AG-AGAAGGAAGAAA
1 AGAAGAAGGAAGAAA
21526049 CTGAACCTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 9 0.32
17 7 0.25
18 1 0.04
19 11 0.39
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (19 bp):
AGAAGAAGGAAGAAAAAGA
Found at i:21526042 original size:16 final size:17
Alignment explanation
Indices: 21525999--21526048 Score: 66
Period size: 16 Copynumber: 2.9 Consensus size: 17
21525989 GGTAATCAAG
*
21525999 AGAAGGAGGAAGAAAAAGA
1 AGAAGAAGGAAG--AAAGA
21526018 AGAAGAAGGAAGAAAGA
1 AGAAGAAGGAAGAAAGA
21526035 AG-AGAAGGAAGAAA
1 AGAAGAAGGAAGAAA
21526049 CTGAACCTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 12 0.40
17 7 0.23
19 11 0.37
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (17 bp):
AGAAGAAGGAAGAAAGA
Found at i:21526771 original size:25 final size:26
Alignment explanation
Indices: 21526742--21526806 Score: 96
Period size: 25 Copynumber: 2.5 Consensus size: 26
21526732 AGATGAGTAT
* *
21526742 GAATGAATGTTGAGTCTGCTA-TTTG
1 GAATGAATATTGAGTCTACTATTTTG
21526767 GAATGAATATTGAGTCTACTATTTTG
1 GAATGAATATTGAGTCTACTATTTTG
21526793 GAATGAATAATTGA
1 GAATGAAT-ATTGA
21526807 AATTATTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 19 0.53
26 12 0.33
27 5 0.14
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.38
Consensus pattern (26 bp):
GAATGAATATTGAGTCTACTATTTTG
Found at i:21544867 original size:25 final size:25
Alignment explanation
Indices: 21544826--21544875 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
21544816 AGCCCTCTTG
21544826 CTTTAATTTAATCAGTTTTAGTTTA
1 CTTTAATTTAATCAGTTTTAGTTTA
* *
21544851 CTTTAATTTGATTAGTTTTAGTTTA
1 CTTTAATTTAATCAGTTTTAGTTTA
21544876 TGTATTTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.26, C:0.06, G:0.10, T:0.58
Consensus pattern (25 bp):
CTTTAATTTAATCAGTTTTAGTTTA
Found at i:21550605 original size:12 final size:12
Alignment explanation
Indices: 21550588--21550623 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
21550578 TTTAAATAGC
*
21550588 ATAAAATAACAA
1 ATAAAAAAACAA
*
21550600 ATAAAAAAAAAA
1 ATAAAAAAACAA
21550612 ATAAAAAAACAA
1 ATAAAAAAACAA
21550624 TTATAAACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.83, C:0.06, G:0.00, T:0.11
Consensus pattern (12 bp):
ATAAAAAAACAA
Found at i:21550752 original size:19 final size:19
Alignment explanation
Indices: 21550730--21550771 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
21550720 AATGAATCAC
*
21550730 AAATAAATAAATAATAATT
1 AAATAAATAAATAAAAATT
*
21550749 AAATAATTAAATAAAAATT
1 AAATAAATAAATAAAAATT
21550768 AAAT
1 AAAT
21550772 GCTAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
AAATAAATAAATAAAAATT
Found at i:21550767 original size:11 final size:12
Alignment explanation
Indices: 21550733--21550771 Score: 55
Period size: 11 Copynumber: 3.4 Consensus size: 12
21550723 GAATCACAAA
21550733 TAAATAAATAA-
1 TAAATAAATAAT
*
21550744 TAATTAAATAAT
1 TAAATAAATAAT
21550756 TAAATAAA-AAT
1 TAAATAAATAAT
21550767 TAAAT
1 TAAAT
21550772 GCTAAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 18 0.72
12 7 0.28
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
TAAATAAATAAT
Found at i:21560519 original size:9 final size:9
Alignment explanation
Indices: 21560505--21560531 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
21560495 GTTGGGAATA
21560505 CTGCTGTTG
1 CTGCTGTTG
21560514 CTGCTGTTG
1 CTGCTGTTG
21560523 CTGCTGTTG
1 CTGCTGTTG
21560532 TCCTTGTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.00, C:0.22, G:0.33, T:0.44
Consensus pattern (9 bp):
CTGCTGTTG
Found at i:21576742 original size:12 final size:12
Alignment explanation
Indices: 21576727--21576776 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
21576717 GGAGGTGATC
*
21576727 AAGAGAAGGATG
1 AAGAGAAGGAAG
* *
21576739 AAGAAAAAGAAG
1 AAGAGAAGGAAG
21576751 AAG-GAAAGGAAG
1 AAGAG-AAGGAAG
21576763 AAGAGAAGGAAG
1 AAGAGAAGGAAG
21576775 AA
1 AA
21576777 ACTGAACCTG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
12 30 0.97
13 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.02
Consensus pattern (12 bp):
AAGAGAAGGAAG
Found at i:21581116 original size:124 final size:122
Alignment explanation
Indices: 21580814--21581174 Score: 562
Period size: 124 Copynumber: 2.9 Consensus size: 122
21580804 TTCTGCTATC
* * * *
21580814 TTTCCTTTTATTTTAATATATCATATTAAAATGGAAATATATCTTTTGAGAAATATATGGAAGGT
1 TTTCCTTTTA-TATAATATCTCATATTAAAATGGAAATAT-TCCTTT-AAAAATATATGGAAGGT
*
21580879 TTATTAAAATATTATATCCTTTCCAAAAGGATGTTAACTTCCATG-TTTTTAATATTCAA
63 TTATTAAAATATTATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTTTAATATTCAA
*
21580938 TTTCCTTTTATATAATATCTCATATTAAAATGGAAATATTCCTTTAAAGAAATATATAGAAGGTT
1 TTTCCTTTTATATAATATCTCATATTAAAATGGAAATATTCCTTT-AA-AAATATATGGAAGGTT
*
21581003 TATTAAAACATTATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTTTAATATTCAA
64 TATTAAAATATTATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTTTAATATTCAA
*
21581062 TTTCCTTTTATATAATATCTCATATTAAAATGTAAATATTCCTTTAAATTAATATATGGAAGGTT
1 TTTCCTTTTATATAATATCTCATATTAAAATGGAAATATTCCTTTAAA--AATATATGGAAGGTT
* *
21581127 TATTAAAATATTATATCCTTTCTAAAAGGATATTAAATTCCATGTTTT
64 TATTAAAATATTATATCCTTTCCAAAAGGATATTAACTTCCATGTTTT
21581175 AATATTTAAC
Statistics
Matches: 220, Mismatches: 13, Indels: 8
0.91 0.05 0.03
Matches are distributed among these distances:
122 7 0.03
123 86 0.39
124 127 0.58
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (122 bp):
TTTCCTTTTATATAATATCTCATATTAAAATGGAAATATTCCTTTAAAAATATATGGAAGGTTTA
TTAAAATATTATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTTTAATATTCAA
Found at i:21597079 original size:21 final size:21
Alignment explanation
Indices: 21597048--21597090 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
21597038 GGGAAGAAAG
*
21597048 AAAGAAAGAAAAAAATAGATAA
1 AAAGAAAG-AAAAAATACATAA
21597070 AAAG-AAGAAAAAATACATAA
1 AAAGAAAGAAAAAATACATAA
21597090 A
1 A
21597091 TATATATATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 13 0.65
21 3 0.15
22 4 0.20
ACGTcount: A:0.77, C:0.02, G:0.12, T:0.09
Consensus pattern (21 bp):
AAAGAAAGAAAAAATACATAA
Found at i:21612713 original size:21 final size:21
Alignment explanation
Indices: 21612675--21612714 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
21612665 AGTTGGTTCG
* * *
21612675 AAGGACAAGAATAGGAAGCGC
1 AAGGACAAAAAGAAGAAGCGC
21612696 AAGGACAAAAAGAAGAAGC
1 AAGGACAAAAAGAAGAAGC
21612715 ATAAGGAGGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.12, G:0.30, T:0.03
Consensus pattern (21 bp):
AAGGACAAAAAGAAGAAGCGC
Found at i:21615792 original size:38 final size:37
Alignment explanation
Indices: 21615750--21615833 Score: 98
Period size: 37 Copynumber: 2.2 Consensus size: 37
21615740 ACTGTAGCTA
* *
21615750 CATAAATATTCTTCAATTTGCATCCA-GAACTATCACTG
1 CATAAACATTCTTCAA-TTGCACCCAGGAA-TATCACTG
* * *
21615788 CATAAGCATTCTTCAATTGCACCCAGGAATGTCGCTG
1 CATAAACATTCTTCAATTGCACCCAGGAATATCACTG
21615825 CATAAACAT
1 CATAAACAT
21615834 GTATAGAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
37 22 0.56
38 17 0.44
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (37 bp):
CATAAACATTCTTCAATTGCACCCAGGAATATCACTG
Found at i:21615826 original size:37 final size:36
Alignment explanation
Indices: 21615728--21615833 Score: 104
Period size: 38 Copynumber: 2.8 Consensus size: 36
21615718 GCACTTCCAG
* * * *
21615728 ATTGCACCCAAGACTGTAGCTACATAAATATTCTTCA
1 ATTGCACCC-AGAATGTCGCTGCATAAACATTCTTCA
* * * *
21615765 ATTTGCATCCAGAACTATCACTGCATAAGCATTCTTCA
1 A-TTGCACCCAGAA-TGTCGCTGCATAAACATTCTTCA
21615803 ATTGCACCCAGGAATGTCGCTGCATAAACAT
1 ATTGCACCCA-GAATGTCGCTGCATAAACAT
21615834 GTATAGAATT
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
37 26 0.48
38 28 0.52
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.28
Consensus pattern (36 bp):
ATTGCACCCAGAATGTCGCTGCATAAACATTCTTCA
Found at i:21624344 original size:123 final size:122
Alignment explanation
Indices: 21624185--21624550 Score: 522
Period size: 123 Copynumber: 3.0 Consensus size: 122
21624175 TTCTGCTATC
* * **
21624185 TTTCCTTTTATTTTAATGTCTCATATTAAAATGGAAATATAT-CTTTTGAGAAATATATGTAAGG
1 TTTCCTTTTA-TATAATATCTCATATTAAAATGGAAATAT-TCCTTTAAAGAAATATATG-AAGG
21624249 TTTATTAAAATATTATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTTAATATTCAA
63 TTTATTAAAATATTATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTTAATATTCAA
* *
21624309 TTTCCTTTTATATAATATCTCATATTACAATGGAAATCTTCCTTTAAAGAAATATATGGAAGGTT
1 TTTCCTTTTATATAATATCTCATATTAAAATGGAAATATTCCTTTAAAGAAATATAT-GAAGGTT
* * *
21624374 TATTAAAACATTATATCCTTTTCAATAGGATATTAACTTCCATGTTTTTTAATATTCAA
65 TATTAAAATATTATATCCTTTCCAAAAGGATATTAACTTCCATG-TTTTTAATATTCAA
* * *
21624433 TTTCCTTTTATATAATATCTCATATTAAAAT-GAAAAATTCCTTTAAAGAAATATACAGAAAGTT
1 TTTCCTTTTATATAATATCTCATATTAAAATGGAAATATTCCTTTAAAGAAATATA-TGAAGGTT
* * *
21624497 TATTAAAATATTATATCCTTTCCAAAAAGATATTAAATTCCGTG-TTTTAATATT
65 TATTAAAATATTATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTTAATATT
21624551 TAACGAAATC
Statistics
Matches: 218, Mismatches: 20, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
121 10 0.05
122 1 0.00
123 152 0.70
124 55 0.25
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.43
Consensus pattern (122 bp):
TTTCCTTTTATATAATATCTCATATTAAAATGGAAATATTCCTTTAAAGAAATATATGAAGGTTT
ATTAAAATATTATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTTAATATTCAA
Found at i:21625817 original size:12 final size:12
Alignment explanation
Indices: 21625800--21625834 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
21625790 ACTGTTTGGA
21625800 GGCACACGGGCT
1 GGCACACGGGCT
21625812 GGCACACGGGCT
1 GGCACACGGGCT
21625824 GGCACACGGGC
1 GGCACACGGGC
21625835 GTGTGTCAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.17, C:0.34, G:0.43, T:0.06
Consensus pattern (12 bp):
GGCACACGGGCT
Found at i:21625880 original size:53 final size:53
Alignment explanation
Indices: 21625812--21626021 Score: 242
Period size: 53 Copynumber: 4.0 Consensus size: 53
21625802 CACACGGGCT
* * * * *
21625812 GGCACACGGGCTGGCACACGGGCGTGTGTCAGGGTATGTGTATACT-ATTTGG
1 GGCACATGGGCTGACACACGGGCATGTGTCAGGGTGTGTGTATACTGTTTTGG
* * * * * * *
21625864 TGGCACATGGGTTGGCACACGGACGTATGCCAGGGTGTGTGTATACTGTTTTAG
1 -GGCACATGGGCTGACACACGGGCATGTGTCAGGGTGTGTGTATACTGTTTTGG
* * *
21625918 GGCACATGGGCTGACACATGGGCATGTATCAAGGTGTGTGTATACTGTTTTGG
1 GGCACATGGGCTGACACACGGGCATGTGTCAGGGTGTGTGTATACTGTTTTGG
* * *
21625971 GGCACATAGGCTGACACATGGGCATGTGTCAGGGTGTGTGTATATTGTTTT
1 GGCACATGGGCTGACACACGGGCATGTGTCAGGGTGTGTGTATACTGTTTT
21626022 AAGACACATG
Statistics
Matches: 134, Mismatches: 22, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
53 130 0.97
54 4 0.03
ACGTcount: A:0.19, C:0.16, G:0.35, T:0.30
Consensus pattern (53 bp):
GGCACATGGGCTGACACACGGGCATGTGTCAGGGTGTGTGTATACTGTTTTGG
Found at i:21625905 original size:65 final size:66
Alignment explanation
Indices: 21625758--21625887 Score: 172
Period size: 65 Copynumber: 2.0 Consensus size: 66
21625748 ACACGATCTA
* * * *
21625758 GCACACGGGCATGTGTCAGGGTGTGTATGTAAACTGTTTGGAGGCACACGGGCTGGCACACGGGC
1 GCACACGGGCGTGTGTCAGGGTATG-ATGTAAACTATTTGGAGGCACACGGGCTGGCACACGGAC
21625823 TG
65 TG
* * * *
21625825 GCACACGGGCGTGTGTCAGGGTATG-TGTATACTATTTGGTGGCACATGGGTTGGCACACGGAC
1 GCACACGGGCGTGTGTCAGGGTATGATGTAAACTATTTGGAGGCACACGGGCTGGCACACGGAC
21625888 GTATGCCAGG
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
65 32 0.58
67 23 0.42
ACGTcount: A:0.19, C:0.20, G:0.38, T:0.23
Consensus pattern (66 bp):
GCACACGGGCGTGTGTCAGGGTATGATGTAAACTATTTGGAGGCACACGGGCTGGCACACGGACT
G
Found at i:21626683 original size:29 final size:29
Alignment explanation
Indices: 21626650--21626720 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
21626640 CCTATATTTG
*
21626650 TAACTGTATCTGTGACATGACTGTATCTA
1 TAACTGTATCTGTGACATGACGGTATCTA
* * *
21626679 TAACTGTATTTGTTACATGACGGTATCTG
1 TAACTGTATCTGTGACATGACGGTATCTA
*
21626708 TAATTGTATCTGT
1 TAACTGTATCTGT
21626721 ATTATTTCTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.42
Consensus pattern (29 bp):
TAACTGTATCTGTGACATGACGGTATCTA
Found at i:21628232 original size:29 final size:29
Alignment explanation
Indices: 21628200--21628276 Score: 118
Period size: 29 Copynumber: 2.7 Consensus size: 29
21628190 GTATCATGCT
21628200 TGCATCTGTAACTGTATCTGTATCATATC
1 TGCATCTGTAACTGTATCTGTATCATATC
* * * *
21628229 TGCACCTCTAACTGTATCTGTATCATGTT
1 TGCATCTGTAACTGTATCTGTATCATATC
21628258 TGCATCTGTAACTGTATCT
1 TGCATCTGTAACTGTATCT
21628277 ATGACAAGAC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (29 bp):
TGCATCTGTAACTGTATCTGTATCATATC
Found at i:21628293 original size:29 final size:29
Alignment explanation
Indices: 21628261--21628390 Score: 127
Period size: 29 Copynumber: 4.5 Consensus size: 29
21628251 TCATGTTTGC
*
21628261 ATCTGTAACTGTATCTATGACAAGACTGT
1 ATCTGTAACTGTATCTATGACATGACTGT
* * * *
21628290 ATCTGTAATTGTATC-AGTGATATGATTAT
1 ATCTGTAACTGTATCTA-TGACATGACTGT
* * *
21628319 ATCTATAACTGTATCTGTGACATGACTTT
1 ATCTGTAACTGTATCTATGACATGACTGT
* * * *
21628348 ATCTATAACTGTATCTGTTACATGACGGT
1 ATCTGTAACTGTATCTATGACATGACTGT
*
21628377 ATCTGTAATTGTAT
1 ATCTGTAACTGTAT
21628391 GTGTATTATT
Statistics
Matches: 83, Mismatches: 16, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
28 1 0.01
29 82 0.99
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (29 bp):
ATCTGTAACTGTATCTATGACATGACTGT
Found at i:21628303 original size:58 final size:58
Alignment explanation
Indices: 21628190--21628365 Score: 169
Period size: 58 Copynumber: 3.0 Consensus size: 58
21628180 ACGGATGGGG
* * * * *
21628190 GTATCATGCTTGCATCTGTAACTGTATCTGT-ATCATA-TCTGCACCTCTAACTGTATCT
1 GTATCATGATTGCATCTGTAACTGTATCTGTGA-CA-AGACTGTATCTATAACTGTATCT
* * * * *
21628248 GTATCATGTTTGCATCTGTAACTGTATCTATGACAAGACTGTATCTGTAATTGTATCA
1 GTATCATGATTGCATCTGTAACTGTATCTGTGACAAGACTGTATCTATAACTGTATCT
** * * *
21628306 GTGAT-ATGATTATATCTATAACTGTATCTGTGACATGACTTTATCTATAACTGTATCT
1 GT-ATCATGATTGCATCTGTAACTGTATCTGTGACAAGACTGTATCTATAACTGTATCT
21628364 GT
1 GT
21628366 TACATGACGG
Statistics
Matches: 97, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
57 1 0.01
58 93 0.96
59 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (58 bp):
GTATCATGATTGCATCTGTAACTGTATCTGTGACAAGACTGTATCTATAACTGTATCT
Found at i:21628380 original size:58 final size:58
Alignment explanation
Indices: 21628261--21628390 Score: 143
Period size: 58 Copynumber: 2.2 Consensus size: 58
21628251 TCATGTTTGC
* * * **
21628261 ATCTGTAACTGTATCTATGACAAGACTGTATCTGTAATTGTATCAGTGATATGATTAT
1 ATCTGTAACTGTATCTATGACAAGACTGTATCTATAACTGTATCAGTGACATGACGAT
* * * * * * *
21628319 ATCTATAACTGTATCTGTGACATGACTTTATCTATAACTGTATCTGTTACATGACGGT
1 ATCTGTAACTGTATCTATGACAAGACTGTATCTATAACTGTATCAGTGACATGACGAT
*
21628377 ATCTGTAATTGTAT
1 ATCTGTAACTGTAT
21628391 GTGTATTATT
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (58 bp):
ATCTGTAACTGTATCTATGACAAGACTGTATCTATAACTGTATCAGTGACATGACGAT
Found at i:21629905 original size:29 final size:29
Alignment explanation
Indices: 21629863--21630069 Score: 145
Period size: 29 Copynumber: 7.1 Consensus size: 29
21629853 ACGGATGGGG
*
21629863 GTATCATGTCTGCATCTGTAACTGTATTT
1 GTATCATGTCTGCATCTGTAACTGTATCT
* * *
21629892 GTATCATATCTGCACCTCTAACTGTATCT
1 GTATCATGTCTGCATCTGTAACTGTATCT
*
21629921 GTATCATGTTTGCATCTGTAACTGTATCT
1 GTATCATGTCTGCATCTGTAACTGTATCT
* * * * * *
21629950 ATGAT-AAGACTGTATCTGTAATTGCATCT
1 GT-ATCATGTCTGCATCTGTAACTGTATCT
** *
21629979 GTGA-CATGAT-TATATCTATAACTGTATCT
1 GT-ATCATG-TCTGCATCTGTAACTGTATCT
* * *
21630008 GTGA-CATGACTGTATCTATAACTGTATCT
1 GT-ATCATGTCTGCATCTGTAACTGTATCT
* * * *
21630037 GT-TACATGACGGTATCTGTAATTGTATCT
1 GTAT-CATGTCTGCATCTGTAACTGTATCT
21630066 GTAT
1 GTAT
21630070 TATTTCTATA
Statistics
Matches: 144, Mismatches: 27, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
29 141 0.98
30 3 0.02
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.41
Consensus pattern (29 bp):
GTATCATGTCTGCATCTGTAACTGTATCT
Found at i:21630053 original size:58 final size:58
Alignment explanation
Indices: 21629934--21630067 Score: 160
Period size: 58 Copynumber: 2.3 Consensus size: 58
21629924 TCATGTTTGC
* * * * **
21629934 ATCTGTAACTGTATCTATGATAAGACTGTATCTGTAATTGCATCTGTGACATGATTAT
1 ATCTGTAACTGTATCTGTGACAAGACTGTATCTATAACTGCATCTGTGACATGACGAT
* * * * *
21629992 ATCTATAACTGTATCTGTGACATGACTGTATCTATAACTGTATCTGTTACATGACGGT
1 ATCTGTAACTGTATCTGTGACAAGACTGTATCTATAACTGCATCTGTGACATGACGAT
*
21630050 ATCTGTAATTGTATCTGT
1 ATCTGTAACTGTATCTGT
21630068 ATTATTTCTA
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
58 63 1.00
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (58 bp):
ATCTGTAACTGTATCTGTGACAAGACTGTATCTATAACTGCATCTGTGACATGACGAT
Found at i:21631313 original size:17 final size:18
Alignment explanation
Indices: 21631284--21631329 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
21631274 TATAATGAAA
21631284 AAATAATAA-AAATAC-AT
1 AAAT-ATAATAAATACAAT
21631301 AAATATAATAAATACAAT
1 AAATATAATAAATACAAT
*
21631319 TAATA-AATAAA
1 AAATATAATAAA
21631330 GTAAAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 4 0.15
17 16 0.62
18 6 0.23
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATATAATAAATACAAT
Found at i:21631756 original size:15 final size:15
Alignment explanation
Indices: 21631724--21631771 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
21631714 TAATGATCAC
21631724 AAATAAATAAAT---
1 AAATAAATAAATGCG
21631736 AAATAAATAAATGCG
1 AAATAAATAAATGCG
21631751 AAATAAA-ATAATGCG
1 AAATAAATA-AATGCG
21631766 AAATAA
1 AAATAA
21631772 TATTAAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
12 12 0.38
14 1 0.03
15 19 0.59
ACGTcount: A:0.67, C:0.04, G:0.08, T:0.21
Consensus pattern (15 bp):
AAATAAATAAATGCG
Found at i:21637814 original size:21 final size:20
Alignment explanation
Indices: 21637788--21637839 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
21637778 TTTTTTCTTT
*
21637788 TTATTATTATTTTATTTTCTC
1 TTATTATT-TTTAATTTTCTC
21637809 TTATTATTTTTAATTTTCAT-
1 TTATTATTTTTAATTTTC-TC
21637829 TT-TTATTTTTA
1 TTATTATTTTTA
21637840 TTATTATACA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 9 0.31
20 11 0.38
21 9 0.31
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (20 bp):
TTATTATTTTTAATTTTCTC
Found at i:21637832 original size:7 final size:6
Alignment explanation
Indices: 21637779--21637952 Score: 63
Period size: 6 Copynumber: 28.2 Consensus size: 6
21637769 TCTTTTTCTT
* * * * *
21637779 TTTTTC TTTTTA TTATTA -TTTTA TTTTCTC TTATTA TTTTTAA TTTTCA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTT-TA TTTTTA TTTTT-A TTTTTA
* *** * * * **
21637828 TTTTTA TTTTTA TTATTA TACATG TTTTGTCA TATTTA CTAGTA TTATTTGA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTT-T-A TTTTTA TTTTTA TT-TTT-A
*
21637880 TTTTCT- TTTATTA TTTTTA TTTTT- TCTTTT- TTCTT- TTTTT- TTTTTA
1 TTTT-TA TTT-TTA TTTTTA TTTTTA T-TTTTA TTTTTA TTTTTA TTTTTA
*
21637926 TATATTA TTTTTCA TTTTTA TTTTTA T
1 T-TTTTA TTTTT-A TTTTTA TTTTTA T
21637953 CATTATGTTT
Statistics
Matches: 124, Mismatches: 30, Indels: 28
0.68 0.16 0.15
Matches are distributed among these distances:
5 17 0.14
6 71 0.57
7 29 0.23
8 7 0.06
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.73
Consensus pattern (6 bp):
TTTTTA
Found at i:21637910 original size:27 final size:27
Alignment explanation
Indices: 21637906--21637974 Score: 72
Period size: 26 Copynumber: 2.6 Consensus size: 27
21637896 TTATTTTTTC
*
21637906 TTTTTTCTTTTTTTTTTTTATATATTA
1 TTTTTTCTTTTTTATTTTTATATATTA
* *
21637933 -TTTTTCATTTTTATTTTTAT-CATTA
1 TTTTTTCTTTTTTATTTTTATATATTA
*
21637958 TGTTTTT-TTATTTATTT
1 T-TTTTTCTTTTTTATTT
21637975 GCTTTTCGTA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
25 4 0.11
26 26 0.74
27 5 0.14
ACGTcount: A:0.16, C:0.04, G:0.01, T:0.78
Consensus pattern (27 bp):
TTTTTTCTTTTTTATTTTTATATATTA
Found at i:21637950 original size:40 final size:42
Alignment explanation
Indices: 21637888--21637973 Score: 106
Period size: 40 Copynumber: 2.1 Consensus size: 42
21637878 GATTTTCTTT
* * *
21637888 TATTATTTTTATTTTTTCTTTTT-TC-TTTTTTTTTTTTATA
1 TATTATTTTTATTTTTTATTTTTATCATTATGTTTTTTTATA
*
21637928 TATTATTTTTCA-TTTTTATTTTTATCATTATGTTTTTTTATT
1 TATTATTTTT-ATTTTTTATTTTTATCATTATGTTTTTTTATA
21637970 TATT
1 TATT
21637974 TGCTTTTCGT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
40 20 0.51
41 3 0.08
42 16 0.41
ACGTcount: A:0.16, C:0.05, G:0.01, T:0.78
Consensus pattern (42 bp):
TATTATTTTTATTTTTTATTTTTATCATTATGTTTTTTTATA
Found at i:21637964 original size:28 final size:26
Alignment explanation
Indices: 21637870--21637970 Score: 78
Period size: 28 Copynumber: 3.7 Consensus size: 26
21637860 TATTTACTAG
*
21637870 TATTATTTGATTTTCTTTTATTATTTTTA
1 TATTATTT--TTTTCATTT-TTATTTTTA
* * * *
21637899 TTTTTTCTTTTTTCTTTTTTTTTTTTA
1 TATTAT-TTTTTTCATTTTTATTTTTA
21637926 TA-TATTATTTTTCATTTTTATTTTTA
1 TATTATT-TTTTTCATTTTTATTTTTA
*
21637952 TCATTATGTTTTTTTATTT
1 T-ATTAT-TTTTTTCATTT
21637971 ATTTGCTTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
25 1 0.02
26 20 0.34
27 10 0.17
28 21 0.36
29 5 0.08
30 2 0.03
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (26 bp):
TATTATTTTTTTCATTTTTATTTTTA
Found at i:21647054 original size:3 final size:3
Alignment explanation
Indices: 21647046--21647085 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
21647036 ACTTATATAA
21647046 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
21647086 GCTAGTTGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:21651522 original size:18 final size:19
Alignment explanation
Indices: 21651492--21651536 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
21651482 AAAAGTGATC
*
21651492 AAAAAAGTA-GAGAAAAA-
1 AAAAAAATATGAGAAAAAT
*
21651509 AGAAAAATATGAGAAAAAT
1 AAAAAAATATGAGAAAAAT
21651528 AAAAAAATA
1 AAAAAAATA
21651537 AAAAAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 7 0.30
18 8 0.35
19 8 0.35
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (19 bp):
AAAAAAATATGAGAAAAAT
Found at i:21655261 original size:17 final size:18
Alignment explanation
Indices: 21655214--21655261 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
21655204 AGCAAATGCA
21655214 AAAAAAGAGAG-AAAAGT
1 AAAAAAGAGAGCAAAAGT
*
21655231 AAAAAAGAAAAGCAAAAG-
1 AAAAAAG-AGAGCAAAAGT
*
21655249 AAAACAGAGAGCA
1 AAAAAAGAGAGCA
21655262 TGAGGTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 12 0.46
18 9 0.35
19 5 0.19
ACGTcount: A:0.71, C:0.06, G:0.21, T:0.02
Consensus pattern (18 bp):
AAAAAAGAGAGCAAAAGT
Found at i:21657571 original size:216 final size:216
Alignment explanation
Indices: 21656964--21658026 Score: 1190
Period size: 218 Copynumber: 4.9 Consensus size: 216
21656954 GGTCATTTTA
* * * * * **
21656964 TCTTCGAATAAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTT-GTTCATAGACGAACTTCAA
1 TCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCT-TTTGGTTCTTGGACAAACTTCCG
* * * * ** *
21657028 AACTTGTCTAACTTTTACGAGTTCTTTTATACCTACATTTCCTTAAATTATTCAAGACGATCCAT
65 ATCTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCAT
* * * * * * ** *
21657093 TTC-TCTGCGTAATTTTTCGAGCATTCTA-GTCTCGGGAAGTCGCATCATTCCGTCCAAATAGTT
130 TCCTTC-GAGCAATTTTTCGAACATTCCATG-CTCGGGAAATCGCATCATTTGGTCTAAATAGTT
21657156 TGTCATTTTGTAAACAAGTTT-TGG
193 TGTCATTTTGTAAACAAGTTTAT-G
* * * * * ** *
21657180 TCTTTTAATTAAAAACTTACTTATGTGAGAATTATTTCTCTCTTGGTTCTTGGATGAACTT-CAA
1 TCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTTTTGGTTCTTGGACAAACTTCCGA
* * * * * *
21657244 ACTTGTCAAGCATTTACGAGATCTTTTATAAC-TCAAGTTCCTTAAAGTATTCAAGACGATCCCT
66 TCTTGTCAAACTTTTACGAGTTCTTTTATAACTTC-GGTTCCTTAAAGTATTCAAGACGATCCAT
* * * * * * *
21657308 TCTTTTGAGCAAATTTTC-AATAGTTCCATTCTCGGGAAATTGCATCATTTGGTCTAAAAAGTTT
130 TCCTTCGAGCAATTTTTCGAACA-TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTT
* * *
21657372 TTCATTTTGTAAATAACTTT-TGG
194 GTCATTTTGTAAACAAGTTTAT-G
* * * *
21657395 TCTTTGAATTAAAAACATATTTACATGACAATTCTTTCTCTTTTGGTTCTTGGACAAACTTCCGA
1 TCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTTTTGGTTCTTGGACAAACTTCCGA
* *
21657460 TCTTGTCAAACTTTTATGAGTTCTTTTATAACATCGGTTCCTTAAAGTATTCAAGACGATCCATT
66 TCTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATT
* * *
21657525 CCTTCAAGCAATTTTTCGAACATTTCATGCTCGGGAAATCGCATCATTTAGTCTAAATAGTTTGT
131 CCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGT
*
21657590 TATTTTGTAAACAAGTTTATG
196 CATTTTGTAAACAAGTTTATG
* * * * * * **
21657611 TCTTCGAATTGAAAACTTTTTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGTCAAACATATGA
1 TCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTTTTGGTTCTTGGACAAAC-T-TCC
* * ** *
21657676 GATCTTGTCAAACTTTTATGAGTTCTTTTATAACTTTGGTTTGTTAAAGTATTGAAGACGATCCA
64 GATCTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCA
* * * *
21657741 TTCCTTCGAGCAATTTTTCAAACATTCCATGCTCGAGAAATCGCATCATTCGGACTAAATAGTTT
129 TTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTT
*
21657806 GACATTTTGTAAACAAGTTTATG
194 GTCATTTTGTAAACAAGTTTATG
* * * *
21657829 TCTTTGAATTAAAAACTTATTTACGAGAGAATTGTTTCTCTCTTT-ATTCTTGGTCAAACATCCG
1 TCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCT-TTTGGTTCTTGGACAAACTTCC-
* * *
21657893 AGATCTTGTTAAACTTTTACGTGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATTC
64 -GATCTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCC
* * *
21657958 ATTCTTTCGAGCAATTTTTCGAACATTCCATGCTCTGGAAATGGCATCATTTGGTCTAAATAGTT
128 ATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTT
21658023 TGTC
193 TGTC
21658027 TTAGAATTAA
Statistics
Matches: 710, Mismatches: 123, Indels: 26
0.83 0.14 0.03
Matches are distributed among these distances:
214 3 0.00
215 170 0.24
216 222 0.31
217 7 0.01
218 306 0.43
219 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (216 bp):
TCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTTTTGGTTCTTGGACAAACTTCCGA
TCTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATT
CCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGT
CATTTTGTAAACAAGTTTATG
Found at i:21657739 original size:218 final size:216
Alignment explanation
Indices: 21656964--21660087 Score: 2670
Period size: 216 Copynumber: 14.6 Consensus size: 216
21656954 GGTCATTTTA
* * * * * * * *
21656964 TCTTCGAATAAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCATAGACGAACTTCAAA
1 TCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGTCAAACTTCAGA
* * * ** *
21657029 ACTTGTCTAACTTTTACGAGTTCTTTTAT-ACCTACATTTCCTTAAATTATTCAAGACGATCCAT
66 TCTTGTCAAACTTTTACGAGTTCTTTTATAACTTA-GGTTCCTTAAAGTATTCAAGACGATCCAT
* * * * * * ** *
21657093 TTC-TCTGCGTAATTTTTCGAGCATTCTA-GTCTCGGGAAGTCGCATCATTCCGTCCAAATAGTT
130 TCCTTC-GAGCAATTTTTCGAACATTCCATG-CTCGGGAAATCGCATCATTTGGTCTAAATAGTT
21657156 TGTCATTTTGTAAACAAGTTTTGG
193 TGTCATTTTGTAAACAAGTTTTGG
* * * * *
21657180 TCTTTTAATTAAAAACTTACTTATGTGAGAATTATTTCTCTCTTGGTTCTTGGAT-GAACTTCA-
1 TCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGG-TCAAACTTCAG
* * * * * * *
21657243 AACTTGTCAAGCATTTACGAGATCTTTTATAACTCAAGTTCCTTAAAGTATTCAAGACGATCCCT
65 ATCTTGTCAAACTTTTACGAGTTCTTTTATAACTTAGGTTCCTTAAAGTATTCAAGACGATCCAT
* * * * * * *
21657308 TCTTTTGAGCAAATTTTC-AATAGTTCCATTCTCGGGAAATTGCATCATTTGGTCTAAAAAGTTT
130 TCCTTCGAGCAATTTTTCGAACA-TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTT
* * *
21657372 TTCATTTTGTAAATAACTTTTGG
194 GTCATTTTGTAAACAAGTTTTGG
* * * * * * *
21657395 TCTTTGAATTAAAAACATATTTACATGACAATTCTTTCTCTTTTGGTTCTTGGACAAACTTCCGA
1 TCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGTCAAACTTCAGA
* * *
21657460 TCTTGTCAAACTTTTATGAGTTCTTTTATAACATCGGTTCCTTAAAGTATTCAAGACGATCCATT
66 TCTTGTCAAACTTTTACGAGTTCTTTTATAACTTAGGTTCCTTAAAGTATTCAAGACGATCCATT
* * *
21657525 CCTTCAAGCAATTTTTCGAACATTTCATGCTCGGGAAATCGCATCATTTAGTCTAAATAGTTTGT
131 CCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGT
*
21657590 TATTTTGTAAACAAGTTTAT-G
196 CATTTTGTAAACAAGTTT-TGG
* * * * *
21657611 TCTTCGAATTGAAAACTTTTTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGTCAAACATATGA
1 TCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGTCAAAC-T-TCA
* * ** *
21657676 GATCTTGTCAAACTTTTATGAGTTCTTTTATAACTTTGGTTTGTTAAAGTATTGAAGACGATCCA
64 GATCTTGTCAAACTTTTACGAGTTCTTTTATAACTTAGGTTCCTTAAAGTATTCAAGACGATCCA
* * * *
21657741 TTCCTTCGAGCAATTTTTCAAACATTCCATGCTCGAGAAATCGCATCATTCGGACTAAATAGTTT
129 TTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTT
*
21657806 GACATTTTGTAAACAAGTTTAT-G
194 GTCATTTTGTAAACAAGTTT-TGG
* ** *
21657829 TCTTTGAATTAAAAACTTATTTACGAGAGAATTGTTTCTCTCTTTATTCTTGGTCAAACATCCGA
1 TCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGTCAAAC-TTC-A
* * * *
21657894 GATCTTGTTAAACTTTTACGTGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATTCA
64 GATCTTGTCAAACTTTTACGAGTTCTTTTATAACTTAGGTTCCTTAAAGTATTCAAGACGATCCA
* * *
21657959 TTCTTTCGAGCAATTTTTCGAACATTCCATGCTCTGGAAATGGCATCATTTGGTCTAAATAGTTT
129 TTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTT
* ** ** *
21658024 GTC--TTAG-AATTAAAATCT--
194 GTCATTTTGTAAACAAGTTTTGG
* * * * * * * ** ** * **
21658042 TATTT-ACA-TGAGAA-TT-TTT-CTCTCTAG-GTTCTTGGATAAACTTCCGAACTT-GTCAAAC
1 TCTTTGA-ATTAAAAACTTATTTAC-GT-GAGAATTGTT-TCT-CTCTT-GGTTCTTGGTCAAAC
* * * *
21658100 TTTTACGAGTTCTTTTTATAAC--TT-CG-GTTC-CTTA-AACTGTTCAAGACGTCCATTCCTTC
60 --TT-C-AGATCTTGTCA-AACTTTTACGAGTTCTTTTATAAC--TT--AG--G----TTCCTT-
* * * * ** * * *
21658159 GAGCAA-TTTTCAAAAC-ATTCC-TTGC-TCG-GGAA--AAT-GAATTATT---TGGTC--TAAA
109 -A--AAGTATTCAAGACGA-TCCATTCCTTCGAGCAATTTTTCGAA-CATTCCATGCTCGGGAAA
* * * **
21658211 TAGTTTATCATTT--TGTAAGCAG---G----TTT-T-----------GG
169 TCG--CATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGG
* ** * * * * *
21658240 TCTTTGAATGAAAAACAAATTTATGTGAGAATTGTTTCTCTATTGGTTCTAGGACAGACTTTC-G
1 TCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGTCAAAC-TTCAG
* * * *
21658304 AACTTGTCAAACTTTT---A---C-----T---TT-GGTTCCTAAAAGAATTCAAGATGATCCAT
65 ATCTTGTCAAACTTTTACGAGTTCTTTTATAACTTAGGTTCCTTAAAGTATTCAAGACGATCCAT
* * * * *
21658354 TCCTTTGAGCAATTTTTCAAACATTCCATGCTTGGGAAATCTCATCATTTGGTGTAAATAGTTTG
130 TCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTG
* * *
21658419 TCATTTTGTAATCAACTATTGG
195 TCATTTTGTAAACAAGTTTTGG
* * * *
21658441 TCTTTGAATTAAAAACTTATTTAAGTGAGAATTGTTTATCTCTTGGTTCTTGGACGAACTTTC-G
1 TCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGTCAAAC-TTCAG
* * *
21658505 AACTTGTCAAACTTCTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACGATCCAT
65 ATCTTGTCAAACTTTTACGAGTTCTTTTATAACTTAGGTTCCTTAAAGTATTCAAGACGATCCAT
** ** *
21658570 TCCTTCGAGCAATTTTTCGAACATTCCACACTCGGGAAATCATATCAATTGGTCTAAATAGTTTG
130 TCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTG
21658635 TCATTTTGTAAACAAGTTTTGG
195 TCATTTTGTAAACAAGTTTTGG
* * *
21658657 TCTTTGAATTAAAAACATATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGAT-GAACTTCAA
1 TCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGG-TCAAACTTCAG
* * * * * * *
21658721 AACTTGTCTAACTTTTACGAGTTCTTTAATAACTTTGGCTCCTTAAAGTATTTAAGACGATCCTT
65 ATCTTGTCAAACTTTTACGAGTTCTTTTATAACTTAGGTTCCTTAAAGTATTCAAGACGATCCAT
* * * **
21658786 TCCTTTGAGTAATTTTTTGAACATTCCATGCTCGGGAAATCATATCATTTGGTCTAAATAGTTTG
130 TCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTG
*
21658851 TCATTTTGTAAACAAGTTTTTG
195 TCATTTTGTAAACAAGTTTTGG
* *
21658873 TCTTTGAA-TACAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCA
1 TCTTTGAATTA-AAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGTCAAACTT-CA
* * *
21658937 -AACTTGTCAAACTTTTACGAGTTATTTTATAAC-TACAGTTCCTTAAAGTATTCAAGACGATCC
64 GATCTTGTCAAACTTTTACGAGTTCTTTTATAACTTA-GGTTCCTTAAAGTATTCAAGACGATCC
* * *** * *
21659000 ATTCCTCCGAGCAATTTTTCGAACATTCCATGCTCGAGAAATCGCATCATTCCTTCGAAATTGTT
128 ATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTT
* *
21659065 TGTAATTTTGTAAACAAGCTTTGG
193 TGTCATTTTGTAAACAAGTTTTGG
* * * * *
21659089 TCTTTTAATTAAAAACTTATTTACGTGAGAATTGTTTCTATCTTGGTTCTTGGAT-GAACTACAA
1 TCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGG-TCAAACTTCAG
* * * * * * *
21659153 AACTTGTCCAGCATGTACAAGATCTTTTATAACTCTAGG-TCCTTAAAGTATTCAAGACGATCCA
65 ATCTTGTCAAACTTTTACGAGTTCTTTTATAACT-TAGGTTCCTTAAAGTATTCAAGACGATCCA
* * * * * *
21659217 TTCCTTCGTGCAA-ATTTCTGATA-TTTTCGTGCTCGGGAAATCTCATCATTTGGTCTAAATAGT
129 TTCCTTCGAGCAATTTTTC-GA-ACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGT
21659280 TTGTCATTTTGTAAACAAGTTTTGG
192 TTGTCATTTTGTAAACAAGTTTTGG
* * * * *
21659305 TCTGTGAATTAAAAACTCATTTACATGAGAATTG-TT-TCTCTTGGTTCTTGGAT-GAACTTCCG
1 TCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGG-TCAAACTTCAG
* *
21659367 AACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCAT
65 ATCTTGTCAAACTTTTACGAGTTCTTTTATAACTTAGGTTCCTTAAAGTATTCAAGACGATCCAT
* * * ** *
21659432 TTCTTAGAGCAATTTTTCTAAACATTCCATGCTCGGGAAATCGCATCATTCCGTCCAAATAGTTT
130 TCCTTCGAGCAATTTTTC-GAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTT
*
21659497 GTCAATTTGTAAACAAGTTTTGG
194 GTCATTTTGTAAACAAGTTTTGG
* * * * *
21659520 TCTTTGAATTAAAAAACTTTTTTATGTGAGAATTGTTTCTCCCTTGGTTCTTGGACAAACTTCCG
1 TCTTTGAATT-AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGTCAAACTTCAG
* * * * * * * *
21659585 AACTTGTCCAACATTTGCAAGATCTTTTATAAATTCCGG-TCCTTAAAGTATTCAAGACGATCCA
65 ATCTTGTCAAACTTTTACGAGTTCTTTTATAACTT-AGGTTCCTTAAAGTATTCAAGACGATCCA
* ** * * * * *
21659649 TTCCTTTGAGCAA-AATTCTGATA-AGTCCTTGCTTGGGAAATTGCATCATTTGGTCTAAAAAGT
129 TTCCTTCGAGCAATTTTTC-GA-ACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGT
* *
21659712 TTGTCATTTTGTAAGCAACTTTTGG
192 TTGTCATTTTGTAAACAAGTTTTGG
* * * * * * * *
21659737 CCTTTGAATTAAAAACTTATTTACGTGGGAATTATTTCTCTTTTGGTTCTTGGACTAGCTTCTGA
1 TCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGTCAAACTTCAGA
* * * * * *
21659802 CCTTTTTCAAACTTTTACGAGTTCTTTTATAACATCGGTTCCTTCAAGTATTCAATACGATCCAT
66 TC-TTGTCAAACTTTTACGAGTTCTTTTATAACTTAGGTTCCTTAAAGTATTCAAGACGATCCAT
* * * * * * * *
21659867 TCCTTCGAGGAATTTTCCAAACATTTCATGATGGGGAAATCGTATCGTTTGGTCTAAATAGTTTG
130 TCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTG
*
21659932 TCGTTTTGTAAACAAGTTTTGG
195 TCATTTTGTAAACAAGTTTTGG
*
21659954 TCTTTGAATTAAAAACTTATTTACGTGAGAATTG-TTCTCTCTTGGTTCTTGGTCAAACATCCGA
1 TCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGTCAAAC-TTC-A
* * *
21660018 GATCTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGATGATTCA
64 GATCTTGTCAAACTTTTACGAGTTCTTTTATAACTTAGGTTCCTTAAAGTATTCAAGACGATCCA
21660083 TTCCT
129 TTCCT
21660088 GATACGAGTT
Statistics
Matches: 2355, Mismatches: 423, Indels: 259
0.78 0.14 0.09
Matches are distributed among these distances:
171 2 0.00
172 9 0.00
173 5 0.00
174 2 0.00
175 8 0.00
177 4 0.00
178 2 0.00
179 1 0.00
180 10 0.00
181 1 0.00
182 11 0.00
184 2 0.00
185 1 0.00
189 3 0.00
190 1 0.00
192 1 0.00
194 3 0.00
195 6 0.00
196 2 0.00
197 1 0.00
198 11 0.00
199 11 0.00
200 3 0.00
201 80 0.03
204 1 0.00
207 3 0.00
209 5 0.00
210 10 0.00
211 11 0.00
212 29 0.01
213 15 0.01
214 111 0.05
215 262 0.11
216 1000 0.42
217 290 0.12
218 407 0.17
219 12 0.01
220 3 0.00
221 4 0.00
222 10 0.00
223 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (216 bp):
TCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGTCAAACTTCAGA
TCTTGTCAAACTTTTACGAGTTCTTTTATAACTTAGGTTCCTTAAAGTATTCAAGACGATCCATT
CCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGT
CATTTTGTAAACAAGTTTTGG
Found at i:21658168 original size:193 final size:196
Alignment explanation
Indices: 21657827--21658216 Score: 526
Period size: 193 Copynumber: 2.0 Consensus size: 196
21657817 AACAAGTTTA
* **
21657827 TGTCTTTGAATTAAAAACTTATTTACGAGAGAATTGTTTCTCTCTTTATTCTTGGTCAAACATCC
1 TGTCTTAGAATTAAAAACTTATTTACGAGAGAATTGTTTCTCTCTAGATTCTTGGTCAAACATCC
* * * *
21657892 GAGATCTTGTTAAACTTTTACGTGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATT
66 GAGATCTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAACTATTCAAGACGATC
* * * *
21657957 CATTCTTTCGAGCAATTTTTC-GAACATTCCATGCTCTGG-AAATGGCATCATTTGGTCTAAATA
131 CATTCCTTCGAGCAA-TTTTCAAAACATTCCATGCTCGGGAAAAT-GAATCATTTGGTCTAAATA
21658020 GTT
194 GTT
* * *
21658023 TGTCTTAGAATTAAAATCTTATTTAC-ATGAGAATT-TTTCTCTCTAGGTTCTTGGAT-AAACTT
1 TGTCTTAGAATTAAAAACTTATTTACGA-GAGAATTGTTTCTCTCTAGATTCTTGG-TCAAACAT
*
21658085 CCGA-A-CTTGTCAAACTTTTACGAGTTCTTTTTATAACTTCGGTTCCTTAAACTGTTCAAGACG
64 CCGAGATCTTGTCAAACTTTTACGAGTTC-TTTTATAACTTCGGTTCCTTAAACTATTCAAGACG
* *
21658148 -TCCATTCCTTCGAGCAATTTTCAAAACATTCCTTGCTCGGGAAAATGAATTATTTGGTCTAAAT
128 ATCCATTCCTTCGAGCAATTTTCAAAACATTCCATGCTCGGGAAAATGAATCATTTGGTCTAAAT
21658212 AGTT
193 AGTT
21658216 T
1 T
21658217 ATCATTTTGT
Statistics
Matches: 172, Mismatches: 17, Indels: 13
0.85 0.08 0.06
Matches are distributed among these distances:
192 5 0.03
193 71 0.41
194 38 0.22
195 26 0.15
196 32 0.19
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (196 bp):
TGTCTTAGAATTAAAAACTTATTTACGAGAGAATTGTTTCTCTCTAGATTCTTGGTCAAACATCC
GAGATCTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAACTATTCAAGACGATC
CATTCCTTCGAGCAATTTTCAAAACATTCCATGCTCGGGAAAATGAATCATTTGGTCTAAATAGT
T
Found at i:21659278 original size:648 final size:649
Alignment explanation
Indices: 21656959--21660087 Score: 3457
Period size: 648 Copynumber: 4.9 Consensus size: 649
21656949 TAGCTGGTCA
* * * * * * *
21656959 TTTTATCTTCGAATAAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTTGTTCATAGACGAACT
1 TTTTGTCTTTGAATAAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGACAAACT
* * * * *
21657024 TCAAAACTTGTCTAACTTTTACGAGTTCTTTTATACCTACATTTCCTTAAATTATTCAAGACGAT
66 TCCAAACTTGTCAAACTTTTACGAGTTCTTTTATAACTACAGTTCCTTAAAGTATTCAAGACGAT
* * * * * * * * *
21657089 CCATTTCTCTGCGTAATTTTTCGAGCATTCTA-GTCTCGGGAAGTCGCATCATTCCGTCCAAATA
131 CCATTCCTTTGAGCAATTTTTCGAACATTCCATG-CTCGGGAAATCGCATCATTCGGTCGAAATA
* * * * *
21657153 GTTTGTCATTTTGTAAACAAGTTTTGGTCTTTTAATTAAAAACTTACTTATGTGAGAATTATTTC
195 GTTTGTCATTTTGTAAACAAGCTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTC
* * * * *
21657218 TCTCTTGGTTCTTGGATGAACTTCAAACTTGTCAAGCATTTACGAGATCTTTTATAACTC-AAGT
260 TCTCTTGGTTCTTGGATGAACTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTCTAGGT
* * * * *
21657282 TCCTTAAAGTATTCAAGACGATCCCTTCTTTTGAGCAAATTT-TC-AATAGTTCCATTCTCGGGA
325 TCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAAATTTCTCGAACA-TTCCATGCTCGGGA
* * * *
21657345 AAT-TGCATCATTTGGTCTAAAAAGTTTTTCATTTTGTAAATAACTTTTGGTCTTTGAATTAAAA
389 AATCT-CATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAA
* * * * *
21657409 ACATATTTACATGACAATTCTTTCTCTTTTGGTTCTTGGACAAACTTCCGATCTTGTCAAACTTT
453 ACATATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGATAAACTTCCGAACTTGTCAAACTTT
* * *
21657474 TATGAGTTCTTTTATAACATCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCAAGCAATTT
518 TACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTT
** * * * *
21657539 TTCGAACATTTCATGCTCGGGAAATCGCATCATTTAGTCTAAATAGTTTGTTATTTTGTAAACAA
583 TTTAAACATTCCATGCTCGGGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAA
21657604 GT
648 GT
* * ** * *
21657606 TTATGTCTTCGAATTGAAAACTTTTTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGTCAAACA
1 TTTTGTCTTTGAATAAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGACAAAC-
* * * *** ** *
21657671 TAT-GAGATCTTGTCAAACTTTTATGAGTTCTTTTATAACTTTGGTTTGTTAAAGTATTGAAGAC
65 T-TCCA-AACTTGTCAAACTTTTACGAGTTCTTTTATAACTACAGTTCCTTAAAGTATTCAAGAC
* * * * *
21657735 GATCCATTCCTTCGAGCAATTTTTCAAACATTCCATGCTCGAGAAATCGCATCATTCGGACTAAA
128 GATCCATTCCTTTGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTCGGTCGAAA
* * *
21657800 TAGTTTGACATTTTGTAAACAAG-TTTATGTCTTTGAATTAAAAACTTATTTACGAGAGAATTGT
193 TAGTTTGTCATTTTGTAAACAAGCTTT-GGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGT
** * * * *
21657864 TTCTCTCTTTATTCTTGG-TCAAACATCCGAGATCTTGTTAAACTTTTACGTGTTCTTTTATAAC
257 TTCTCTCTTGGTTCTTGGAT-GAAC-TTCGA-A-CTTGTCAAACTTTTACGAGTTCTTTTATAAC
* * * *
21657928 T-TCGGTTCCTTAAAGTATTCAAGACGATTCATTCTTTCGAGC-AATTTTTCGAACATTCCATGC
318 TCTAGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAAATTTCTCGAACATTCCATGC
* **
21657991 TCTGGAAATGGCATCATTTGGTCTAAATAGTTTGTC----T-T-----A------------GAAT
383 TCGGGAAATCTCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAAT
* * *
21658034 TAAAATCTTATTTACATGAGAATT-TTTCTCTCTAGGTTCTTGGATAAACTTCCGAACTTGTCAA
448 TAAAAACATATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGATAAACTTCCGAACTTGTCAA
* *
21658098 ACTTTTACGAGTTCTTTTTATAACTTCGGTTCCTTAAACTGTTCAAGACG-TCCATTCCTTCGAG
513 ACTTTTACGAGTTC-TTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAG
** * * * *
21658162 CAATTTTCAAAACATTCCTTGCTCGGGAAAATGA-ATTATTTGGTCTAAATAGTTTATCATTTTG
577 CAATTTTTTAAACATTCCATGCTCGGG-AAATCACATCATTTGGTCTAAATAGTTTGTCATTTTG
* *
21658226 TAAGCAGGT
641 TAAACAAGT
* * ** * * *
21658235 TTTGGTCTTTGAATGAAAAACAAATTTATGTGAGAATTGTTTCTCTATTGGTTCTAGGACAGACT
1 TTTTGTCTTTGAATAAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGACAAACT
* * * * * *
21658300 TTCGAACTTGTCAAACTTTT---A---C---T-T---T--GGTTCCTAAAAGAATTCAAGATGAT
66 TCCAAACTTGTCAAACTTTTACGAGTTCTTTTATAACTACAGTTCCTTAAAGTATTCAAGACGAT
* * * *
21658350 CCATTCCTTTGAGCAATTTTTCAAACATTCCATGCTTGGGAAATCTCATCATTTGGT-GTAAATA
131 CCATTCCTTTGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTCGGTCG-AAATA
* *
21658414 GTTTGTCATTTTGTAATCAA-CTATTGGTCTTTGAATTAAAAACTTATTTAAGTGAGAATTGTTT
195 GTTTGTCATTTTGTAAACAAGCT-TTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTT
* * * *
21658478 ATCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTCTACGAGTTCTTTTATAACT-TTG
259 CTCTCTTGGTTCTTGGATGAAC-TTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTCTAG
* **
21658542 GTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGC-AATTTTTCGAACATTCCACACTCGGG
323 GTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAAATTTCTCGAACATTCCATGCTCGGG
*
21658606 AAATCAT-ATCAATTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAA
388 AAATC-TCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAA
* * ** *
21658670 AACATATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCAAAACTTGTCTAACTT
452 AACATATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGATAAACTTCCGAACTTGTCAAACTT
* * * * * * *
21658735 TTACGAGTTCTTTAATAACTTTGGCTCCTTAAAGTATTTAAGACGATCCTTTCCTTTGAGTAATT
517 TTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATT
* *
21658800 TTTTGAACATTCCATGCTCGGGAAATCATATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACA
582 TTTTAAACATTCCATGCTCGGGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACA
21658865 AGT
647 AGT
* * *
21658868 TTTTGTCTTTGAATACAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACT
1 TTTTGTCTTTGAATAAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGACAAACT
*
21658933 TCCAAACTTGTCAAACTTTTACGAGTTATTTTATAACTACAGTTCCTTAAAGTATTCAAGACGAT
66 TCCAAACTTGTCAAACTTTTACGAGTTCTTTTATAACTACAGTTCCTTAAAGTATTCAAGACGAT
** * ** *
21658998 CCATTCCTCCGAGCAATTTTTCGAACATTCCATGCTCGAGAAATCGCATCATTCCTTCGAAATTG
131 CCATTCCTTTGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTCGGTCGAAATAG
* *
21659063 TTTGTAATTTTGTAAACAAGCTTTGGTCTTTTAATTAAAAACTTATTTACGTGAGAATTGTTTCT
196 TTTGTCATTTTGTAAACAAGCTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCT
* * * * * * * * *
21659128 ATCTTGGTTCTTGGATGAACTACAAAACTTGTCCAGCATGTACAAGATCTTTTATAACTCTAGG-
261 CTCTTGGTTCTTGGATGAACTTC-GAACTTGTCAAACTTTTACGAGTTCTTTTATAACTCTAGGT
* * * *
21659192 TCCTTAAAGTATTCAAGACGATCCATTCCTTCGTGCAAATTTCT-GATA-TTTTCGTGCTCGGGA
325 TCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAAATTTCTCGA-ACATTCCATGCTCGGGA
*
21659255 AATCTCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTGTGAATTAAAAA
389 AATCTCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAA
*
21659320 C-TCATTTACATGAGAATTG-TT-TCTCTTGGTTCTTGGATGAACTTCCGAACTTGTCAAACTTT
454 CAT-ATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGATAAACTTCCGAACTTGTCAAACTTT
* *
21659382 TACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTTCTTAGAGCAATTT
518 TACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTT
* ** * *
21659447 TTCTAAACATTCCATGCTCGGGAAATCGCATCATTCCGTCCAAATAGTTTGTCAATTTGTAAACA
583 TT-TAAACATTCCATGCTCGGGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACA
21659512 AGT
647 AGT
* * *
21659515 TTTGGTCTTTGAATTAAAAAACTTTTTTATGTGAGAATTGTTTCTCCCTTGGTTCTTGGACAAAC
1 TTTTGTCTTTGAA-TAAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGACAAAC
* * * * * * * * * *
21659580 TTCCGAACTTGTCCAACATTTGCAAGATCTTTTATAAATTCCGGTCCTTAAAGTATTCAAGACGA
65 TTCCAAACTTGTCAAACTTTTACGAGTTCTTTTATAACTACAGTTCCTTAAAGTATTCAAGACGA
** * * * * * *
21659645 TCCATTCCTTTGAGCAA-AATTCTGATA-AGTCCTTGCTTGGGAAATTGCATCATTTGGTCTAAA
130 TCCATTCCTTTGAGCAATTTTTC-GA-ACATTCCATGCTCGGGAAATCGCATCATTCGGTCGAAA
* * * * *
21659708 AAGTTTGTCATTTTGTAAGCAA-CTTTTGGCCTTTGAATTAAAAACTTATTTACGTGGGAATTAT
193 TAGTTTGTCATTTTGTAAACAAGC-TTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGT
* * * *
21659772 TTCTCTTTTGGTTCTTGGACT-AGCTTCTGACCTTTTTCAAACTTTTACGAGTTCTTTTATAACA
257 TTCTCTCTTGGTTCTTGGA-TGAACTTC-GAAC-TTGTCAAACTTTTACGAGTTCTTTTATAAC-
* * * * * * *
21659836 TC--GGTTCCTTCAAGTATTCAATACGATCCATTCCTTCGAGGAATTTTC-CAAACATTTCATGA
318 TCTAGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAAATTTCTCGAACATTCCATGC
* * *
21659898 TGGGGAAATCGT-ATCGTTTGGTCTAAATAGTTTGTCGTTTTGTAAACAAGTTTTGGTCTTTGAA
383 TCGGGAAATC-TCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAA
* * *
21659962 TTAAAAACTTATTTACGTGAGAATTG-TTCTCTCTTGGTTCTTGG-TCAAACATCCGAGATCTTG
447 TTAAAAACATATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGAT-AAACTTCCGA-A-CTTG
* *
21660025 TCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGATGATTCATTCCT
509 TCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCT
21660088 GATACGAGTT
Statistics
Matches: 2086, Mismatches: 310, Indels: 167
0.81 0.12 0.07
Matches are distributed among these distances:
610 117 0.06
611 1 0.00
612 150 0.07
613 2 0.00
614 2 0.00
615 1 0.00
617 1 0.00
618 1 0.00
620 1 0.00
621 1 0.00
624 1 0.00
627 16 0.01
628 1 0.00
629 169 0.08
630 61 0.03
632 59 0.03
633 191 0.09
636 1 0.00
642 2 0.00
643 1 0.00
646 98 0.05
647 134 0.06
648 532 0.26
649 336 0.16
650 31 0.01
651 7 0.00
652 166 0.08
653 3 0.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (649 bp):
TTTTGTCTTTGAATAAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGACAAACT
TCCAAACTTGTCAAACTTTTACGAGTTCTTTTATAACTACAGTTCCTTAAAGTATTCAAGACGAT
CCATTCCTTTGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTCGGTCGAAATAG
TTTGTCATTTTGTAAACAAGCTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCT
CTCTTGGTTCTTGGATGAACTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTCTAGGTT
CCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAAATTTCTCGAACATTCCATGCTCGGGAAA
TCTCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACA
TATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGATAAACTTCCGAACTTGTCAAACTTTTAC
GAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTT
AAACATTCCATGCTCGGGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGT
Found at i:21662537 original size:95 final size:95
Alignment explanation
Indices: 21662435--21662625 Score: 373
Period size: 95 Copynumber: 2.0 Consensus size: 95
21662425 GGAAAATACT
21662435 TACAAATTTAATTATTTGATTGATATTTTTAAATACAAAAATTGGAGGACTTCATTTTTAACATT
1 TACAAATTTAATTATTTGATTGATATTTTTAAATACAAAAATTGGAGGACTTCATTTTTAACATT
21662500 ATAAGTACAAAGGCTAAATCTCAAAATTTG
66 ATAAGTACAAAGGCTAAATCTCAAAATTTG
21662530 TACAAATTTAATTATTTGATTGATATTTTTAAATACAAAAATTGGAGGACTTCATTTTTAACATT
1 TACAAATTTAATTATTTGATTGATATTTTTAAATACAAAAATTGGAGGACTTCATTTTTAACATT
*
21662595 ATAAGTACAAAGGCTAAATCTCAAATTTTG
66 ATAAGTACAAAGGCTAAATCTCAAAATTTG
21662625 T
1 T
21662626 TTGTACAAGG
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.40
Consensus pattern (95 bp):
TACAAATTTAATTATTTGATTGATATTTTTAAATACAAAAATTGGAGGACTTCATTTTTAACATT
ATAAGTACAAAGGCTAAATCTCAAAATTTG
Found at i:21662888 original size:20 final size:22
Alignment explanation
Indices: 21662850--21662889 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
21662840 ATCGTATATA
*
21662850 CATATATATAATACTTATGATT
1 CATATAAATAATACTTATGATT
21662872 CATATAAAT-ATAC-TATGA
1 CATATAAATAATACTTATGA
21662890 AAGTTGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 4 0.24
22 8 0.47
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (22 bp):
CATATAAATAATACTTATGATT
Found at i:21664025 original size:23 final size:23
Alignment explanation
Indices: 21663993--21664069 Score: 120
Period size: 23 Copynumber: 3.4 Consensus size: 23
21663983 AATTATTATT
21663993 ATTAT-TTTGTAACTCTCCTGCC
1 ATTATGTTTGTAACTCTCCTGCC
* *
21664015 ATTATGTTTGTAACTCTTCTGTC
1 ATTATGTTTGTAACTCTCCTGCC
21664038 ATTATGTTTGTAACTCTCCTGCC
1 ATTATGTTTGTAACTCTCCTGCC
*
21664061 ATAATGTTT
1 ATTATGTTT
21664070 TGTTTTAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
22 5 0.10
23 44 0.90
ACGTcount: A:0.19, C:0.21, G:0.12, T:0.48
Consensus pattern (23 bp):
ATTATGTTTGTAACTCTCCTGCC
Found at i:21667423 original size:25 final size:24
Alignment explanation
Indices: 21667395--21667452 Score: 75
Period size: 23 Copynumber: 2.4 Consensus size: 24
21667385 CTAACCAATT
21667395 ATTAATATTTTGTAACTCTCCTGCC
1 ATTAAT-TTTTGTAACTCTCCTGCC
*
21667420 ATT-ATGTTTGTAACTCTCCTGCC
1 ATTAATTTTTGTAACTCTCCTGCC
21667443 A-TAATGTTTT
1 ATTAAT-TTTT
21667453 ATTTAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 1 0.03
23 20 0.69
24 5 0.17
25 3 0.10
ACGTcount: A:0.22, C:0.21, G:0.10, T:0.47
Consensus pattern (24 bp):
ATTAATTTTTGTAACTCTCCTGCC
Found at i:21667432 original size:23 final size:23
Alignment explanation
Indices: 21667403--21667451 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
21667393 TTATTAATAT
*
21667403 TTTGTAACTCTCCTGCCATTATG
1 TTTGTAACTCTCCTGCCATAATG
21667426 TTTGTAACTCTCCTGCCATAATG
1 TTTGTAACTCTCCTGCCATAATG
21667449 TTT
1 TTT
21667452 TATTTAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.18, C:0.24, G:0.12, T:0.45
Consensus pattern (23 bp):
TTTGTAACTCTCCTGCCATAATG
Found at i:21684704 original size:102 final size:102
Alignment explanation
Indices: 21684565--21685411 Score: 1015
Period size: 102 Copynumber: 8.3 Consensus size: 102
21684555 AAATGGTAAC
* * * * * ** *
21684565 TCCTATATCCTTGAAGTTACAGTGGAAT-GGAGTAAAACTAATAGTAGTGGATCTTAATCTCCCT
1 TCCTATATCCCTAAAGTTACAGTGG-ATCAGATTAAAACTAACAGTAGCAGATCTCAATCTCCCT
*
21684629 GAAGTTGGAGTGGAATGGAGTGAAGTTACAACACCAAA
65 GAAGTTGCAGTGGAATGGAGTGAAGTTACAACACCAAA
* * * * *
21684667 TCCTATACCCCTAAAGTTGCAATGGATCGGATTAAAACTAACAGTAGTAGATCTCAATCTCCCTG
1 TCCTATATCCCTAAAGTTACAGTGGATCAGATTAAAACTAACAGTAGCAGATCTCAATCTCCCTG
* * **
21684732 AAGTTACAGTAGAATGGAGTGAAGTTACAACATAAAA
66 AAGTTGCAGTGGAATGGAGTGAAGTTACAACACCAAA
* * * * *
21684769 TCCTATATCCCTGAAGTTACAGTGGATCA-A-AAAAAATAAAAAGTAACTA-ATCTCAATC-CCC
1 TCCTATATCCCTAAAGTTACAGTGGATCAGATTAAAACT-AACAGTAGC-AGATCTCAATCTCCC
* *
21684830 TAGAAGTTGAAGTGGAATGTAGTGAAGTTACAACACCAAA
64 T-GAAGTTGCAGTGGAATGGAGTGAAGTTACAACACCAAA
** * * * * *
21684870 TCCTATATCCCTAAAGTTGTAGTGGCTCAGATTAAAACAAACAGTAGCGGATCTCAATTTCCCTA
1 TCCTATATCCCTAAAGTTACAGTGGATCAGATTAAAACTAACAGTAGCAGATCTCAATCTCCCTG
* *
21684935 AAGTTGCAATGGAATGGAGTGAAGTTACAACATCAAA
66 AAGTTGCAGTGGAATGGAGTGAAGTTACAACACCAAA
* * *
21684972 TCCTATATCCCTAAAGTTACAGTGGATCAAATTAAAACTAACACTAGCGGATCTCAATCTCCCTG
1 TCCTATATCCCTAAAGTTACAGTGGATCAGATTAAAACTAACAGTAGCAGATCTCAATCTCCCTG
*
21685037 AAGTTGCAGTGGAATAGAGTGAAGTTACAACACCAAA
66 AAGTTGCAGTGGAATGGAGTGAAGTTACAACACCAAA
* * * * *
21685074 TCCTATATCCTTGAAGTTACAGTGGATCAAATTAAAACTAACAGTAGAAGATCTCAATCT-CCTA
1 TCCTATATCCCTAAAGTTACAGTGGATCAGATTAAAACTAACAGTAGCAGATCTCAATCTCCCTG
*
21685138 AAGTTGTAGTGGAATGGAGTGAAGTTACAACACCAAA
66 AAGTTGCAGTGGAATGGAGTGAAGTTACAACACCAAA
* *
21685175 TCCTATATCCCTGAAA-TTACAGTGGATCGGATTAAAACTAACAGTAGCAAATCTCAATCTCCCT
1 TCCTATATCCCT-AAAGTTACAGTGGATCAGATTAAAACTAACAGTAGCAGATCTCAATCTCCCT
** *
21685239 GAAGTTATAGTGGAATGGAGTGAAGTTACGACACCAAA
65 GAAGTTGCAGTGGAATGGAGTGAAGTTACAACACCAAA
* * ** * * *
21685277 TCTTATATCCCTAAAATTGTAATGGTTCAGATTAAAACTAACAGTAACAGATCTCAATCTCCCTG
1 TCCTATATCCCTAAAGTTACAGTGGATCAGATTAAAACTAACAGTAGCAGATCTCAATCTCCCTG
* ** *
21685342 AAGTTGCAATGGAATGGAGTGAAGTTATGACATCAAA
66 AAGTTGCAGTGGAATGGAGTGAAGTTACAACACCAAA
* * * * *
21685379 TCTTATACCCCAAAAGTTGCAGTGGGTCAGATT
1 TCCTATATCCCTAAAGTTACAGTGGATCAGATT
21685412 GAAGCTACGA
Statistics
Matches: 641, Mismatches: 93, Indels: 22
0.85 0.12 0.03
Matches are distributed among these distances:
100 9 0.01
101 167 0.26
102 457 0.71
103 8 0.01
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.26
Consensus pattern (102 bp):
TCCTATATCCCTAAAGTTACAGTGGATCAGATTAAAACTAACAGTAGCAGATCTCAATCTCCCTG
AAGTTGCAGTGGAATGGAGTGAAGTTACAACACCAAA
Found at i:21684915 original size:203 final size:202
Alignment explanation
Indices: 21684565--21685403 Score: 1027
Period size: 203 Copynumber: 4.1 Consensus size: 202
21684555 AAATGGTAAC
* * ** * *** *
21684565 TCCTATATCCTTGAAGTTACAGTGGAATGGAGTAAAACTAATAGTAGTGGATCTTAATCTCCCTG
1 TCCTATATCCCTGAAGTTACAGTGG-AT-CAAAAAAACTAACAGTAGCAAATCTCAATCTCCCTG
* *
21684630 AAGTTGGAGTGGAATGGAGTGAAGTTACAACACCAAATCCTATACCCCTAAAGTTGCAATGGATC
64 AAGTTGAAGTGGAATGGAGTGAAGTTACAACACCAAATCCTATATCCCTAAAGTTGCAATGGATC
* * * * * *
21684695 GGATTAAAACTAACAGTAGTAGATCTCAATCTCCCTGAAGTTACAGTAGAATGGAGTGAAGTTAC
129 AGATTAAAACTAACAGTAGCAGATCTCAATCTCCCTAAAGTTGCAATGGAATGGAGTGAAGTTAC
*
21684760 AACATAAAA
194 AACATCAAA
* * * *
21684769 TCCTATATCCCTGAAGTTACAGTGGATCAAAAAAAATAAAAAGTAACTAATCTCAATC-CCCTAG
1 TCCTATATCCCTGAAGTTACAGTGGATCAAAAAAACT-AACAGTAGCAAATCTCAATCTCCCT-G
* * * *
21684833 AAGTTGAAGTGGAATGTAGTGAAGTTACAACACCAAATCCTATATCCCTAAAGTTGTAGTGGCTC
64 AAGTTGAAGTGGAATGGAGTGAAGTTACAACACCAAATCCTATATCCCTAAAGTTGCAATGGATC
* * *
21684898 AGATTAAAACAAACAGTAGCGGATCTCAATTTCCCTAAAGTTGCAATGGAATGGAGTGAAGTTAC
129 AGATTAAAACTAACAGTAGCAGATCTCAATCTCCCTAAAGTTGCAATGGAATGGAGTGAAGTTAC
21684963 AACATCAAA
194 AACATCAAA
* * **
21684972 TCCTATATCCCTAAAGTTACAGTGGATCAAATTAAAACTAACACTAGCGGATCTCAATCTCCCTG
1 TCCTATATCCCTGAAGTTACAGTGGATCAAA--AAAACTAACAGTAGCAAATCTCAATCTCCCTG
* * * * * *
21685037 AAGTTGCAGTGGAATAGAGTGAAGTTACAACACCAAATCCTATATCCTTGAAGTTACAGTGGATC
64 AAGTTGAAGTGGAATGGAGTGAAGTTACAACACCAAATCCTATATCCCTAAAGTTGCAATGGATC
* * * *
21685102 AAATTAAAACTAACAGTAGAAGATCTCAATCT-CCTAAAGTTGTAGTGGAATGGAGTGAAGTTAC
129 AGATTAAAACTAACAGTAGCAGATCTCAATCTCCCTAAAGTTGCAATGGAATGGAGTGAAGTTAC
*
21685166 AACACCAAA
194 AACATCAAA
* **
21685175 TCCTATATCCCTGAAATTACAGTGGATCGGATTAAAACTAACAGTAGCAAATCTCAATCTCCCTG
1 TCCTATATCCCTGAAGTTACAGTGGATC--AAAAAAACTAACAGTAGCAAATCTCAATCTCCCTG
* * * * *
21685240 AAGTT-ATAGTGGAATGGAGTGAAGTTACGACACCAAATCTTATATCCCTAAAATTGTAATGGTT
64 AAGTTGA-AGTGGAATGGAGTGAAGTTACAACACCAAATCCTATATCCCTAAAGTTGCAATGGAT
* *
21685304 CAGATTAAAACTAACAGTAACAGATCTCAATCTCCCTGAAGTTGCAATGGAATGGAGTGAAGTTA
128 CAGATTAAAACTAACAGTAGCAGATCTCAATCTCCCTAAAGTTGCAATGGAATGGAGTGAAGTTA
**
21685369 TGACATCAAA
193 CAACATCAAA
* * ** *
21685379 TCTTATACCCCAAAAGTTGCAGTGG
1 TCCTATATCCCTGAAGTTACAGTGG
21685404 GTCAGATTGA
Statistics
Matches: 543, Mismatches: 83, Indels: 18
0.84 0.13 0.03
Matches are distributed among these distances:
202 10 0.02
203 345 0.64
204 178 0.33
205 10 0.02
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.26
Consensus pattern (202 bp):
TCCTATATCCCTGAAGTTACAGTGGATCAAAAAAACTAACAGTAGCAAATCTCAATCTCCCTGAA
GTTGAAGTGGAATGGAGTGAAGTTACAACACCAAATCCTATATCCCTAAAGTTGCAATGGATCAG
ATTAAAACTAACAGTAGCAGATCTCAATCTCCCTAAAGTTGCAATGGAATGGAGTGAAGTTACAA
CATCAAA
Found at i:21685151 original size:305 final size:304
Alignment explanation
Indices: 21684565--21685368 Score: 1087
Period size: 305 Copynumber: 2.6 Consensus size: 304
21684555 AAATGGTAAC
* * * * * * *
21684565 TCCTATATCCTTGAAGTTACAGTGGAAT-GGAGTAAAACTAATAGTAGTGGATCTTAATCTCCCT
1 TCCTATATCCCTGAAATTACAGTGG-ATCAGATTAAAACTAACAGTAGCGGATCTCAATCTCCCT
* *
21684629 GAAGTTGGAGTGGAATGGAGTGAAGTTACAACACCAAATCCTATACCCCTAAAGTTGCAATGGAT
65 GAAGTTGCAGTGGAATGGAGTGAAGTTACAACACCAAATCCTATATCCCTAAAGTTGCAATGGAT
* * * *
21684694 CGGATTAAAACTAACAGTAGTAGATCTCAATCTCCCTGAAGTTACAGTAGAATGGAGTGAAGTTA
130 CAGATTAAAACTAACAGTAGCAGATCTCAATCTCCCTGAAGTTGCAGTGGAATGGAGTGAAGTTA
*
21684759 CAACATAAAATCCTATATCCCTGAAGTTACAGTGGATCAAAAAAAATAAAAAGTAACTAATCTCA
195 CAACACAAAATCCTATATCCCTGAAGTTACAGTGGATCAAAAAAAATAAAAAGTAAC-AATCTCA
*
21684824 ATCCCCTAGAAGTTGAAGTGGAATGTAGTGAAGTTACAACACCAAA
259 ATCCCCTAGAAGTTGAAGTGGAATGGAGTGAAGTTACAACACCAAA
** * * *
21684870 TCCTATATCCCT-AAAGTTGTAGTGGCTCAGATTAAAACAAACAGTAGCGGATCTCAATTTCCCT
1 TCCTATATCCCTGAAA-TTACAGTGGATCAGATTAAAACTAACAGTAGCGGATCTCAATCTCCCT
* * * * *
21684934 AAAGTTGCAATGGAATGGAGTGAAGTTACAACATCAAATCCTATATCCCTAAAGTTACAGTGGAT
65 GAAGTTGCAGTGGAATGGAGTGAAGTTACAACACCAAATCCTATATCCCTAAAGTTGCAATGGAT
* * * *
21684999 CAAATTAAAACTAACACTAGCGGATCTCAATCTCCCTGAAGTTGCAGTGGAATAGAGTGAAGTTA
130 CAGATTAAAACTAACAGTAGCAGATCTCAATCTCCCTGAAGTTGCAGTGGAATGGAGTGAAGTTA
* * * *
21685064 CAACACCAAATCCTATATCCTTGAAGTTACAGTGGATCAAATTAAAACT-AACAGTAGA-AGATC
195 CAACACAAAATCCTATATCCCTGAAGTTACAGTGGATCAAA--AAAAATAAAAAGTA-ACA-ATC
* *
21685127 TCAATCTCCTA-AAGTTGTAGTGGAATGGAGTGAAGTTACAACACCAAA
256 TCAATCCCCTAGAAGTTGAAGTGGAATGGAGTGAAGTTACAACACCAAA
* **
21685175 TCCTATATCCCTGAAATTACAGTGGATCGGATTAAAACTAACAGTAGCAAATCTCAATCTCCCTG
1 TCCTATATCCCTGAAATTACAGTGGATCAGATTAAAACTAACAGTAGCGGATCTCAATCTCCCTG
** * * * * *
21685240 AAGTTATAGTGGAATGGAGTGAAGTTACGACACCAAATCTTATATCCCTAAAATTGTAATGGTTC
66 AAGTTGCAGTGGAATGGAGTGAAGTTACAACACCAAATCCTATATCCCTAAAGTTGCAATGGATC
* *
21685305 AGATTAAAACTAACAGTAACAGATCTCAATCTCCCTGAAGTTGCAATGGAATGGAGTGAAGTTA
131 AGATTAAAACTAACAGTAGCAGATCTCAATCTCCCTGAAGTTGCAGTGGAATGGAGTGAAGTTA
21685369 TGACATCAAA
Statistics
Matches: 431, Mismatches: 61, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
304 3 0.01
305 400 0.93
306 22 0.05
307 6 0.01
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.26
Consensus pattern (304 bp):
TCCTATATCCCTGAAATTACAGTGGATCAGATTAAAACTAACAGTAGCGGATCTCAATCTCCCTG
AAGTTGCAGTGGAATGGAGTGAAGTTACAACACCAAATCCTATATCCCTAAAGTTGCAATGGATC
AGATTAAAACTAACAGTAGCAGATCTCAATCTCCCTGAAGTTGCAGTGGAATGGAGTGAAGTTAC
AACACAAAATCCTATATCCCTGAAGTTACAGTGGATCAAAAAAAATAAAAAGTAACAATCTCAAT
CCCCTAGAAGTTGAAGTGGAATGGAGTGAAGTTACAACACCAAA
Found at i:21685564 original size:100 final size:101
Alignment explanation
Indices: 21685399--21685590 Score: 237
Period size: 100 Copynumber: 1.9 Consensus size: 101
21685389 CAAAAGTTGC
* * * * *
21685399 AGTGGGTCAGATTGAAGCTACGAAAGCAAATCTTATCTCTCTAAAATTGCAGTAGAGCAATATGA
1 AGTGGGCCAGATTGAAGCTACGAAAGCAAATCTTATCTCCCTAAAATTGCAATAGAGAAAGATGA
*
21685464 AACTACCACATCAAATTCTATA-CCCTTGATATTGT
66 AACTACCACATCAAATCCTATATCCCTTGATATTGT
* * *
21685499 AGTGGGCCGGATTGAAGCTAC-AGAAGCAAATCTTATCTCCCTGAAGA-TGCAATGGAGAAAGAT
1 AGTGGGCCAGATTGAAGCTACGA-AAGCAAATCTTATCTCCCT-AAAATTGCAATAGAGAAAGAT
** *
21685562 GAAGTTACGACATCAAATCCTATATCCCT
64 GAAACTACCACATCAAATCCTATATCCCT
21685591 GAGGTTACAG
Statistics
Matches: 77, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
99 1 0.01
100 69 0.90
101 7 0.09
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (101 bp):
AGTGGGCCAGATTGAAGCTACGAAAGCAAATCTTATCTCCCTAAAATTGCAATAGAGAAAGATGA
AACTACCACATCAAATCCTATATCCCTTGATATTGT
Found at i:21687269 original size:14 final size:14
Alignment explanation
Indices: 21687250--21687290 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
21687240 TTTTCATTTT
*
21687250 ATTTTATTTCTTTA
1 ATTTTATTCCTTTA
*
21687264 ATTTTA-GCCTTTA
1 ATTTTATTCCTTTA
21687277 ATTTTATTCCTTTA
1 ATTTTATTCCTTTA
21687291 CAATATAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.22, C:0.12, G:0.02, T:0.63
Consensus pattern (14 bp):
ATTTTATTCCTTTA
Found at i:21687567 original size:15 final size:15
Alignment explanation
Indices: 21687538--21687580 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
21687528 TATTTTATGT
*
21687538 TTTATTTGTTT-TTA
1 TTTATTTATTTATTA
21687552 TTTCATTT-TTTATTA
1 TTT-ATTTATTTATTA
21687567 TTTATTTATTTATT
1 TTTATTTATTTATT
21687581 TTCAGTATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 10 0.38
15 16 0.62
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (15 bp):
TTTATTTATTTATTA
Found at i:21689489 original size:14 final size:15
Alignment explanation
Indices: 21689470--21689499 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
21689460 TTATTTATAT
21689470 AATACT-TATGATTC
1 AATACTATATGATTC
21689484 AATACTATATGATTC
1 AATACTATATGATTC
21689499 A
1 A
21689500 TATAAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (15 bp):
AATACTATATGATTC
Found at i:21691724 original size:500 final size:500
Alignment explanation
Indices: 21690980--21691981 Score: 1995
Period size: 500 Copynumber: 2.0 Consensus size: 500
21690970 TATTGAAGGG
21690980 ATTAAAACTGATGAGAGATAATTAGGGAATGGTAAAACTAGATTTGTTGTGACTTTTTTTTAATT
1 ATTAAAACTGATGAGAGATAATTAGGGAATGGTAAAACTAGATTTGTTGTGACTTTTTTTTAATT
21691045 CTATTAGGATCAAAACTATTAAAATTTATAAACATATATAATATAATATGGATATATGAATAATT
66 CTATTAGGATCAAAACTATTAAAATTTATAAACATATATAATATAATATGGATATATGAATAATT
21691110 TAAAACTTTTATAATACAAATTATTAAAATTATAAAAATAGTTTAAGATAAATTACAAAATTGCT
131 TAAAACTTTTATAATACAAATTATTAAAATTATAAAAATAGTTTAAGATAAATTACAAAATTGCT
21691175 CAAAACTTCATTCAATGTACATTGATATGTGAATTTTATGCAATTGTAAAGAATAATTTGTCATT
196 CAAAACTTCATTCAATGTACATTGATATGTGAATTTTATGCAATTGTAAAGAATAATTTGTCATT
21691240 TTAATTTATTGTACAAATCACTAACATTGTGATAGATGTAAAACTAATTTATATTTACTTAATAC
261 TTAATTTATTGTACAAATCACTAACATTGTGATAGATGTAAAACTAATTTATATTTACTTAATAC
21691305 ATAAATATAGTTTTATTTATCACAATATACAATTAAATTAAAATCAAAGTTACATGTATACAATT
326 ATAAATATAGTTTTATTTATCACAATATACAATTAAATTAAAATCAAAGTTACATGTATACAATT
21691370 AAATCAATATTAAACTTTGTTGTGTATAATTGAACTAAATTTTGGTTTAATGAATTAATTAAAAA
391 AAATCAATATTAAACTTTGTTGTGTATAATTGAACTAAATTTTGGTTTAATGAATTAATTAAAAA
21691435 ATTAAGAGCTTAAAAATAGATATTAAATTTTTAATATTTAATGCA
456 ATTAAGAGCTTAAAAATAGATATTAAATTTTTAATATTTAATGCA
*
21691480 ATTAAAATTGATGAGAGATAATTAGGGAATGGTAAAACTAGATTTGTTGTGACTTTTTTTTAATT
1 ATTAAAACTGATGAGAGATAATTAGGGAATGGTAAAACTAGATTTGTTGTGACTTTTTTTTAATT
21691545 CTATTAGGATCAAAACTATTAAAATTTATAAACATATATAATATAATATGGATATATGAATAATT
66 CTATTAGGATCAAAACTATTAAAATTTATAAACATATATAATATAATATGGATATATGAATAATT
21691610 TAAAACTTTTATAATACAAATTATTAAAATTATAAAAATAGTTTAAGATAAATTACAAAATTGCT
131 TAAAACTTTTATAATACAAATTATTAAAATTATAAAAATAGTTTAAGATAAATTACAAAATTGCT
21691675 CAAAACTTCATTCAATGTACATTGATATGTGAATTTTATGCAATTGTAAAGAATAATTTGTCATT
196 CAAAACTTCATTCAATGTACATTGATATGTGAATTTTATGCAATTGTAAAGAATAATTTGTCATT
21691740 TTAATTTATTGTACAAATCACTAACATTGTGATAGATGTAAAACTAATTTATATTTACTTAATAC
261 TTAATTTATTGTACAAATCACTAACATTGTGATAGATGTAAAACTAATTTATATTTACTTAATAC
21691805 ATAAATATAGTTTTATTTATCACAATATACAATTAAATTAAAATCAAAGTTACATGTATACAATT
326 ATAAATATAGTTTTATTTATCACAATATACAATTAAATTAAAATCAAAGTTACATGTATACAATT
21691870 AAATCAATATTAAACTTTGTTGTGTATAATTGAACTAAATTTTGGTTTAATGAATTAATTAAAAA
391 AAATCAATATTAAACTTTGTTGTGTATAATTGAACTAAATTTTGGTTTAATGAATTAATTAAAAA
21691935 ATTAAGAGCTTAAAAATAGATATTAAATTTTTAATATTTAATGCA
456 ATTAAGAGCTTAAAAATAGATATTAAATTTTTAATATTTAATGCA
21691980 AT
1 AT
21691982 ATGTGTTGAA
Statistics
Matches: 501, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
500 501 1.00
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.40
Consensus pattern (500 bp):
ATTAAAACTGATGAGAGATAATTAGGGAATGGTAAAACTAGATTTGTTGTGACTTTTTTTTAATT
CTATTAGGATCAAAACTATTAAAATTTATAAACATATATAATATAATATGGATATATGAATAATT
TAAAACTTTTATAATACAAATTATTAAAATTATAAAAATAGTTTAAGATAAATTACAAAATTGCT
CAAAACTTCATTCAATGTACATTGATATGTGAATTTTATGCAATTGTAAAGAATAATTTGTCATT
TTAATTTATTGTACAAATCACTAACATTGTGATAGATGTAAAACTAATTTATATTTACTTAATAC
ATAAATATAGTTTTATTTATCACAATATACAATTAAATTAAAATCAAAGTTACATGTATACAATT
AAATCAATATTAAACTTTGTTGTGTATAATTGAACTAAATTTTGGTTTAATGAATTAATTAAAAA
ATTAAGAGCTTAAAAATAGATATTAAATTTTTAATATTTAATGCA
Found at i:21694565 original size:36 final size:35
Alignment explanation
Indices: 21694482--21694655 Score: 240
Period size: 36 Copynumber: 4.9 Consensus size: 35
21694472 CTGTTGTGAA
*
21694482 AGTAAATACGTGGGTATGTTATTCATGCCATAGAC
1 AGTAAATATGTGGGTATGTTATTCATGCCATAGAC
* *
21694517 AGTAAATATGTGGGTATGTTATTCATGTCATATGAT
1 AGTAAATATGTGGGTATGTTATTCATGCCATA-GAC
* * **
21694553 AGTAAATGTGTGGGTATATTATTCATTTCATGAGAC
1 AGTAAATATGTGGGTATGTTATTCATGCCAT-AGAC
*
21694589 AGTAAATATGTGGGTATGTTATTCATGCCATGTGAC
1 AGTAAATATGTGGGTATGTTATTCATGCCAT-AGAC
*
21694625 AATAAATATGTGGGTATGTTATTCATGCCAT
1 AGTAAATATGTGGGTATGTTATTCATGCCAT
21694656 GTGACAATGA
Statistics
Matches: 124, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
35 30 0.24
36 93 0.75
37 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.37
Consensus pattern (35 bp):
AGTAAATATGTGGGTATGTTATTCATGCCATAGAC
Found at i:21694656 original size:36 final size:36
Alignment explanation
Indices: 21694476--21694669 Score: 239
Period size: 36 Copynumber: 5.4 Consensus size: 36
21694466 TGATGACTGT
*
21694476 TGTGA-AAGTAAATACGTGGGTATGTTATTCATGCCA
1 TGTGACAA-TAAATATGTGGGTATGTTATTCATGCCA
* * *
21694512 T-AGACAGTAAATATGTGGGTATGTTATTCATGTCA
1 TGTGACAATAAATATGTGGGTATGTTATTCATGCCA
* * * * * **
21694547 TATGATAGTAAATGTGTGGGTATATTATTCATTTCA
1 TGTGACAATAAATATGTGGGTATGTTATTCATGCCA
* *
21694583 TGAGACAGTAAATATGTGGGTATGTTATTCATGCCA
1 TGTGACAATAAATATGTGGGTATGTTATTCATGCCA
21694619 TGTGACAATAAATATGTGGGTATGTTATTCATGCCA
1 TGTGACAATAAATATGTGGGTATGTTATTCATGCCA
*
21694655 TGTGACAATGAATAT
1 TGTGACAATAAATAT
21694670 ATCGTGCTAA
Statistics
Matches: 137, Mismatches: 19, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
35 29 0.21
36 108 0.79
ACGTcount: A:0.31, C:0.09, G:0.23, T:0.37
Consensus pattern (36 bp):
TGTGACAATAAATATGTGGGTATGTTATTCATGCCA
Found at i:21695228 original size:92 final size:92
Alignment explanation
Indices: 21695064--21695392 Score: 473
Period size: 92 Copynumber: 3.6 Consensus size: 92
21695054 ATTAAATGTG
* * * * * * *
21695064 TTAAATATTAATGTTATTTGTGTTTAAATATTTATGTGGTTTATGCTTAAATATTAATGTGATCT
1 TTAAATATTAATGTGATTTGTGCTTAAATATTAATGTGATTTATGCTTAAATGTTAATATGATTT
* *
21695129 ATACTTAAATGTTAATATGGTTTATGC
66 ATACTTAAATATTAATATGATTTATGC
21695156 TTAAATATTAATGTGATTTGTGCTTAAATATTAATGTGATTTATGCTTAAATGTTAATATGATTT
1 TTAAATATTAATGTGATTTGTGCTTAAATATTAATGTGATTTATGCTTAAATGTTAATATGATTT
* *
21695221 ATTCTTAAATATTAATATGATCTATGC
66 ATACTTAAATATTAATATGATTTATGC
*
21695248 TTAAATATTAACT-TTATTTGTGCTTAAATATTAATGTGATTTATGCTTAAATGTTAATATGATT
1 TTAAATATTAA-TGTGATTTGTGCTTAAATATTAATGTGATTTATGCTTAAATGTTAATATGATT
* * *
21695312 TATGCTTAAACATTAATGTGATTTATGC
65 TATACTTAAATATTAATATGATTTATGC
* *
21695340 TTAAATATTAATGTGACTTATGCTTAAATATTAATGTGATTTATG-TGTAAATG
1 TTAAATATTAATGTGATTTGTGCTTAAATATTAATGTGATTTATGCT-TAAATG
21695393 GACCCATGAA
Statistics
Matches: 215, Mismatches: 19, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
91 2 0.01
92 212 0.99
93 1 0.00
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.48
Consensus pattern (92 bp):
TTAAATATTAATGTGATTTGTGCTTAAATATTAATGTGATTTATGCTTAAATGTTAATATGATTT
ATACTTAAATATTAATATGATTTATGC
Found at i:21695391 original size:23 final size:23
Alignment explanation
Indices: 21695064--21695384 Score: 428
Period size: 23 Copynumber: 14.0 Consensus size: 23
21695054 ATTAAATGTG
* * *
21695064 TTAAATATTAATGTTATTTGTGT
1 TTAAATATTAATGTGATTTATGC
* *
21695087 TTAAATATTTATGTGGTTTATGC
1 TTAAATATTAATGTGATTTATGC
* *
21695110 TTAAATATTAATGTGATCTATAC
1 TTAAATATTAATGTGATTTATGC
* * *
21695133 TTAAATGTTAATATGGTTTATGC
1 TTAAATATTAATGTGATTTATGC
*
21695156 TTAAATATTAATGTGATTTGTGC
1 TTAAATATTAATGTGATTTATGC
21695179 TTAAATATTAATGTGATTTATGC
1 TTAAATATTAATGTGATTTATGC
* * *
21695202 TTAAATGTTAATATGATTTATTC
1 TTAAATATTAATGTGATTTATGC
* *
21695225 TTAAATATTAATATGATCTATGC
1 TTAAATATTAATGTGATTTATGC
* *
21695248 TTAAATATTAACT-TTATTTGTGC
1 TTAAATATTAA-TGTGATTTATGC
21695271 TTAAATATTAATGTGATTTATGC
1 TTAAATATTAATGTGATTTATGC
* *
21695294 TTAAATGTTAATATGATTTATGC
1 TTAAATATTAATGTGATTTATGC
*
21695317 TTAAACATTAATGTGATTTATGC
1 TTAAATATTAATGTGATTTATGC
*
21695340 TTAAATATTAATGTGACTTATGC
1 TTAAATATTAATGTGATTTATGC
21695363 TTAAATATTAATGTGATTTATG
1 TTAAATATTAATGTGATTTATG
21695385 TGTAAATGGA
Statistics
Matches: 258, Mismatches: 38, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
22 1 0.00
23 256 0.99
24 1 0.00
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.48
Consensus pattern (23 bp):
TTAAATATTAATGTGATTTATGC
Found at i:21697860 original size:26 final size:26
Alignment explanation
Indices: 21697829--21697921 Score: 84
Period size: 26 Copynumber: 3.6 Consensus size: 26
21697819 GTACGTAGTA
21697829 CTTGCTA-AGTAATCATCGACTCAAAG
1 CTTGCTAGA-TAATCATCGACTCAAAG
* *
21697855 CCTGCTAGATCAAT-ATCGGCTCAAAG
1 CTTGCTAGAT-AATCATCGACTCAAAG
* *
21697881 CTTGCTAGTTAAACA-CTGACTCAAAG
1 CTTGCTAGATAATCATC-GACTCAAAG
* *
21697907 CTTGTTAAATAATCA
1 CTTGCTAGATAATCA
21697922 CTGGCTCTAA
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
25 3 0.06
26 46 0.87
27 4 0.08
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (26 bp):
CTTGCTAGATAATCATCGACTCAAAG
Found at i:21697923 original size:26 final size:26
Alignment explanation
Indices: 21697874--21697945 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 26
21697864 TCAATATCGG
* **
21697874 CTCAAAGCTTGCTAGTTAAACACTGA
1 CTCAAAGCTTGATAAATAAACACTGA
* * *
21697900 CTCAAAGCTTGTTAAATAATCACTGG
1 CTCAAAGCTTGATAAATAAACACTGA
*
21697926 CTCTAAGCTTGATAAATAAA
1 CTCAAAGCTTGATAAATAAA
21697946 AACCGGCTCA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (26 bp):
CTCAAAGCTTGATAAATAAACACTGA
Found at i:21697928 original size:52 final size:52
Alignment explanation
Indices: 21697872--21698054 Score: 197
Period size: 52 Copynumber: 3.5 Consensus size: 52
21697862 GATCAATATC
*
21697872 GGCTCAAAGCTTGCTAGTTAAACACTGACTCAAAGCTTGTTAAATAATCACT
1 GGCTCTAAGCTTGCTAGTTAAACACTGACTCAAAGCTTGTTAAATAATCACT
* ** * * * * * * *
21697924 GGCTCTAAGCTTGATAAATAAAAACCGGCTCAAGGCCTATTAAATAATCACC
1 GGCTCTAAGCTTGCTAGTTAAACACTGACTCAAAGCTTGTTAAATAATCACT
* * * * *
21697976 GACTTTAAGCCTACTAGTTAAACAC-CAGCTCAAAGCTTGTTAAATAATCACT
1 GGCTCTAAGCTTGCTAGTTAAACACTGA-CTCAAAGCTTGTTAAATAATCACT
*
21698028 GGCTCTAAGATTGCTAGTTAAACACTG
1 GGCTCTAAGCTTGCTAGTTAAACACTG
21698055 TATTCATTTT
Statistics
Matches: 98, Mismatches: 31, Indels: 3
0.74 0.23 0.02
Matches are distributed among these distances:
52 98 1.00
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (52 bp):
GGCTCTAAGCTTGCTAGTTAAACACTGACTCAAAGCTTGTTAAATAATCACT
Found at i:21697953 original size:26 final size:26
Alignment explanation
Indices: 21697904--21697954 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
21697894 CACTGACTCA
* ** *
21697904 AAGCTTGTTAAATAATCACTGGCTCT
1 AAGCTTGATAAATAAAAACCGGCTCT
21697930 AAGCTTGATAAATAAAAACCGGCTC
1 AAGCTTGATAAATAAAAACCGGCTC
21697955 AAGGCCTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (26 bp):
AAGCTTGATAAATAAAAACCGGCTCT
Found at i:21697976 original size:26 final size:27
Alignment explanation
Indices: 21697911--21698036 Score: 82
Period size: 26 Copynumber: 4.8 Consensus size: 27
21697901 TCAAAGCTTG
* *
21697911 TTAAATAATCACTGGCTCTAAGCTTGA
1 TTAAATAATCACCGGCTCTAAGCCTGA
**
21697938 -TAAATAAAAACCGGCTC-AAGGCCT-A
1 TTAAATAATCACCGGCTCTAA-GCCTGA
* *
21697963 TTAAATAATCACCGACTTTAAGCCT-A
1 TTAAATAATCACCGGCTCTAAGCCTGA
* ** * * * *
21697989 CTAGTTAAACACCAGCTCAAAGCTTG-
1 TTAAATAATCACCGGCTCTAAGCCTGA
*
21698015 TTAAATAATCACTGGCTCTAAG
1 TTAAATAATCACCGGCTCTAAG
21698037 ATTGCTAGTT
Statistics
Matches: 71, Mismatches: 24, Indels: 9
0.68 0.23 0.09
Matches are distributed among these distances:
25 3 0.04
26 66 0.93
27 2 0.03
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.27
Consensus pattern (27 bp):
TTAAATAATCACCGGCTCTAAGCCTGA
Found at i:21700334 original size:29 final size:31
Alignment explanation
Indices: 21700275--21700334 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 31
21700265 TTGATCATTG
* *
21700275 AACTATTCATAAGTTTCCATTTAAGTGACTA
1 AACTATTCAAAAGTTTCCATTTAAGTCACTA
*
21700306 AACTATT-AAAAGTTTTCA-TTAAGTCACTA
1 AACTATTCAAAAGTTTCCATTTAAGTCACTA
21700335 GGCCATTAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 10 0.38
30 9 0.35
31 7 0.27
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (31 bp):
AACTATTCAAAAGTTTCCATTTAAGTCACTA
Found at i:21702687 original size:83 final size:83
Alignment explanation
Indices: 21702548--21702701 Score: 281
Period size: 83 Copynumber: 1.9 Consensus size: 83
21702538 CTTGCTTATA
*
21702548 TCACCAATTGTTCAGCAAGGAAAGCCACCTATAAGAAAAGAAATAAGGGTTTGATGAAAAAGATG
1 TCACCAATGGTTCAGCAAGGAAAGCCACCTATAAGAAAAGAAATAAGGGTTTGATGAAAAAGATG
21702613 AGTGAGCTGAGTACTATG
66 AGTGAGCTGAGTACTATG
* *
21702631 TCACCAATGGTTCAGCAAGGAAAGCTACCTATACGAAAAGAAATAAGGGTTTGATGAAAAAGATG
1 TCACCAATGGTTCAGCAAGGAAAGCCACCTATAAGAAAAGAAATAAGGGTTTGATGAAAAAGATG
21702696 AGTGAG
66 AGTGAG
21702702 TTGATACCCT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 68 1.00
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.21
Consensus pattern (83 bp):
TCACCAATGGTTCAGCAAGGAAAGCCACCTATAAGAAAAGAAATAAGGGTTTGATGAAAAAGATG
AGTGAGCTGAGTACTATG
Found at i:21708710 original size:3 final size:3
Alignment explanation
Indices: 21708702--21708730 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
21708692 GGAGTTTATG
21708702 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
21708731 TCCTCAAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:21713665 original size:10 final size:11
Alignment explanation
Indices: 21713641--21713674 Score: 52
Period size: 10 Copynumber: 3.1 Consensus size: 11
21713631 GAAGCAATAC
21713641 ATAAAATCAAAA
1 ATAAAATC-AAA
21713653 ATAAAAT-AAA
1 ATAAAATCAAA
21713663 ATAAAATCAAA
1 ATAAAATCAAA
21713674 A
1 A
21713675 CAATTCCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.48
11 4 0.19
12 7 0.33
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (11 bp):
ATAAAATCAAA
Found at i:21734994 original size:24 final size:24
Alignment explanation
Indices: 21734967--21735012 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
21734957 AAGACTTAGT
*
21734967 ATTTATTAGTATAATATATTTTTC
1 ATTTATTAGCATAATATATTTTTC
*
21734991 ATTTATTAGCATAATTTATTTT
1 ATTTATTAGCATAATATATTTT
21735013 ACCTATGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (24 bp):
ATTTATTAGCATAATATATTTTTC
Found at i:21737525 original size:26 final size:26
Alignment explanation
Indices: 21737513--21737601 Score: 151
Period size: 26 Copynumber: 3.4 Consensus size: 26
21737503 TTTTATTTAT
*
21737513 CAGGCTTTGAGCCAGTGTTTAACTAG
1 CAGGCTTTGAGCCGGTGTTTAACTAG
21737539 CAGGCTTTGAGCCGGTGTTTAACTAG
1 CAGGCTTTGAGCCGGTGTTTAACTAG
* *
21737565 CAAGCTTTGAGCCGATGTTTAACTAG
1 CAGGCTTTGAGCCGGTGTTTAACTAG
21737591 CAGGCTTTGAG
1 CAGGCTTTGAG
21737602 TCCATGATTA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 59 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (26 bp):
CAGGCTTTGAGCCGGTGTTTAACTAG
Found at i:21737578 original size:78 final size:78
Alignment explanation
Indices: 21737395--21737601 Score: 189
Period size: 78 Copynumber: 2.7 Consensus size: 78
21737385 AAAATGAATA
* ** * * * *
21737395 CAGTGTTTAACTAGCAAGCTTAGAGTTGATGATTATTTAACAAGCTTTGAGTCGGTGTTTAACTA
1 CAGTGTTTAACTAGCAAGCTTTGAGCCGATGTTTATTTAACAGGCTTTGAGCCAGTGTTTAACTA
*
21737460 GCAGGCATAGAGT
66 GCAGGCATAGAGC
* ** ** * * * * * *
21737473 CAGTGATTATTTAATAGGCCTTAAGCCGGTTTTTATTTATCAGGCTTTGAGCCAGTGTTTAACTA
1 CAGTGTTTAACTAGCAAGCTTTGAGCCGATGTTTATTTAACAGGCTTTGAGCCAGTGTTTAACTA
* *
21737538 GCAGGCTTTGAGC
66 GCAGGCATAGAGC
* ** *
21737551 CGGTGTTTAACTAGCAAGCTTTGAGCCGATGTTTAACTAGCAGGCTTTGAG
1 CAGTGTTTAACTAGCAAGCTTTGAGCCGATGTTTATTTAACAGGCTTTGAG
21737602 TCCATGATTA
Statistics
Matches: 94, Mismatches: 35, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
78 94 1.00
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (78 bp):
CAGTGTTTAACTAGCAAGCTTTGAGCCGATGTTTATTTAACAGGCTTTGAGCCAGTGTTTAACTA
GCAGGCATAGAGC
Found at i:21737618 original size:52 final size:52
Alignment explanation
Indices: 21737516--21737620 Score: 144
Period size: 52 Copynumber: 2.0 Consensus size: 52
21737506 TATTTATCAG
* *
21737516 GCTTTGAGCCAGTGTTTAACTAGCAGGCTTTGAGCCGGTGTTTAACTAGCAA
1 GCTTTGAGCCAGTGTTTAACTAGCAGGCTTTGAGCCGATGATTAACTAGCAA
21737568 GCTTTGAGCC-GATGTTTAACTAGCAGGCTTTGAGTCC-ATGATT-ACTTAGCAA
1 GCTTTGAGCCAG-TGTTTAACTAGCAGGCTTTGAG-CCGATGATTAAC-TAGCAA
21737620 G
1 G
21737621 TACTATGTAC
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
51 3 0.06
52 43 0.90
53 2 0.04
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (52 bp):
GCTTTGAGCCAGTGTTTAACTAGCAGGCTTTGAGCCGATGATTAACTAGCAA
Found at i:21740082 original size:23 final size:23
Alignment explanation
Indices: 21740063--21740383 Score: 419
Period size: 23 Copynumber: 14.0 Consensus size: 23
21740053 TCCATTTACA
21740063 CATAAATCACATTAATATTTAAG
1 CATAAATCACATTAATATTTAAG
* *
21740086 CATAAATCACATTAATGTTTAAA
1 CATAAATCACATTAATATTTAAG
* *
21740109 CATAAATCATATTAACATTTAAG
1 CATAAATCACATTAATATTTAAG
*
21740132 CATAAATCACACTAATATTTAAG
1 CATAAATCACATTAATATTTAAG
* *
21740155 CACAAATCAAATTAATATTTAAG
1 CATAAATCACATTAATATTTAAG
* * * *
21740178 AATAGATCATATTTATATTTAAG
1 CATAAATCACATTAATATTTAAG
21740201 CATAAATCACATTAATATTTAAG
1 CATAAATCACATTAATATTTAAG
** *
21740224 CATAAATCATTTTAACATTTAAG
1 CATAAATCACATTAATATTTAAG
*
21740247 CATAAATCACATTAATAATTAAG
1 CATAAATCACATTAATATTTAAG
*
21740270 CACAAATCACATTAATATTTAAG
1 CATAAATCACATTAATATTTAAG
* * *
21740293 CATAAACCATATTAACATTTAAG
1 CATAAATCACATTAATATTTAAG
21740316 CATAAATCACATTAATATTTAAG
1 CATAAATCACATTAATATTTAAG
* * *
21740339 CACAAA-CTACATAAATATTTAAA
1 CATAAATC-ACATTAATATTTAAG
*
21740362 CACAAATCACATTAATATTTAA
1 CATAAATCACATTAATATTTAA
21740384 CACATTTAAT
Statistics
Matches: 255, Mismatches: 41, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
22 1 0.00
23 253 0.99
24 1 0.00
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (23 bp):
CATAAATCACATTAATATTTAAG
Done.