Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 32 of 141
Found at i:9750023 original size:21 final size:19
Alignment explanation
Indices: 9749978--9750024 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
9749968 AATATATAAA
9749978 AAAATAATATTTTTATTAT
1 AAAATAATATTTTTATTAT
*
9749997 ATAATACATATTTATT-TATAT
1 AAAATA-ATATTT-TTAT-TAT
9750018 AAAATAA
1 AAAATAA
9750025 AAGAGTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
19 5 0.22
20 8 0.35
21 10 0.43
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
AAAATAATATTTTTATTAT
Found at i:9750024 original size:24 final size:21
Alignment explanation
Indices: 9749970--9750024 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 21
9749960 AACATAACAA
*
9749970 TATATAAAAAAATAATATTTT
1 TATATAAAATAATAATATTTT
*
9749991 TAT-T-ATATAATACATATTTATT
1 TATATAAAATAATA-ATA-TT-TT
9750013 TATATAAAATAA
1 TATATAAAATAA
9750025 AAGAGTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
19 6 0.23
20 4 0.15
21 5 0.19
22 5 0.19
23 1 0.04
24 5 0.19
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
TATATAAAATAATAATATTTT
Found at i:9750676 original size:5 final size:5
Alignment explanation
Indices: 9750666--9750691 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
9750656 TCTTAAACCA
9750666 CCACC CCACC CCACC CCACC CCACC C
1 CCACC CCACC CCACC CCACC CCACC C
9750692 AAAAAAGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.81, G:0.00, T:0.00
Consensus pattern (5 bp):
CCACC
Found at i:9754549 original size:17 final size:17
Alignment explanation
Indices: 9754527--9754568 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
9754517 TATATTTTAC
*
9754527 ATTTTTTAATGATTTTT
1 ATTTTTTAATAATTTTT
*
9754544 ATTTTTAAATAATTTTT
1 ATTTTTTAATAATTTTT
9754561 ATTATTTT
1 ATT-TTTT
9754569 TACTTTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTT
Found at i:9756931 original size:57 final size:57
Alignment explanation
Indices: 9756843--9756959 Score: 225
Period size: 57 Copynumber: 2.1 Consensus size: 57
9756833 ACATGTTTAG
*
9756843 AATAAAATAGGTGTCAGTTGAATCATATATTACTTGAAAAAAAAGAAGTAAAATCAT
1 AATAAAACAGGTGTCAGTTGAATCATATATTACTTGAAAAAAAAGAAGTAAAATCAT
9756900 AATAAAACAGGTGTCAGTTGAATCATATATTACTTGAAAAAAAAGAAGTAAAATCAT
1 AATAAAACAGGTGTCAGTTGAATCATATATTACTTGAAAAAAAAGAAGTAAAATCAT
9756957 AAT
1 AAT
9756960 TTGGAACCTG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.51, C:0.08, G:0.14, T:0.27
Consensus pattern (57 bp):
AATAAAACAGGTGTCAGTTGAATCATATATTACTTGAAAAAAAAGAAGTAAAATCAT
Found at i:9760424 original size:25 final size:25
Alignment explanation
Indices: 9760361--9760430 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
9760351 GGATACACCA
* *
9760361 CAGCTCATATAAGCTTACTGATTTG
1 CAGCTCATATGAGCTTACCGATTTG
9760386 CAGCTCATGA-GAGCTTACCGATTCT-
1 CAGCTCAT-ATGAGCTTACCGATT-TG
*
9760411 CAGCTCGTATGAGCTTACCG
1 CAGCTCATATGAGCTTACCG
9760431 TTATTTCATC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
24 1 0.03
25 36 0.92
26 2 0.05
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (25 bp):
CAGCTCATATGAGCTTACCGATTTG
Found at i:9767878 original size:25 final size:25
Alignment explanation
Indices: 9767815--9767883 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
9767805 GGACACACCA
*
9767815 CAGCTTGTATGAGCTTACCGATTTG
1 CAGCTCGTATGAGCTTACCGATTTG
* * *
9767840 TAGCGCGTGA-GAGCTTATCGATTCT-
1 CAGCTCGT-ATGAGCTTACCGATT-TG
9767865 CAGCTCGTATGAGCTTACC
1 CAGCTCGTATGAGCTTACC
9767884 ATTATTTTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
24 1 0.03
25 31 0.91
26 2 0.06
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.32
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACCGATTTG
Found at i:9771550 original size:110 final size:110
Alignment explanation
Indices: 9771357--9771575 Score: 384
Period size: 110 Copynumber: 2.0 Consensus size: 110
9771347 TCATTTCATA
* * *
9771357 CCTTTCCATAGGTTTATAAGATAACCATTAGAACACTTACTGTTCCTTCCCTATGCATGCCCGTT
1 CCTTTCCATAGGTTTATAACATAACCATTAGAACACTTACCGTTCATTCCCTATGCATGCCCGTT
*
9771422 GAATCACTTAGAATAATATCGGATACGCGGGAAAGCTTACATAAT
66 GAATCACTTAGAATAATATCGGATACGCGGGAAAGCTCACATAAT
* *
9771467 CCTTTCCATATGTTTATAACATAACCATTAGAACACTTACCGTTCATTCCCTTTGCATGCCCGTT
1 CCTTTCCATAGGTTTATAACATAACCATTAGAACACTTACCGTTCATTCCCTATGCATGCCCGTT
9771532 GAATCACTTAGAATAATATCGGATACGCGGGAAAGCTCACATAA
66 GAATCACTTAGAATAATATCGGATACGCGGGAAAGCTCACATAA
9771576 AATGTGCTAA
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
110 103 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.31
Consensus pattern (110 bp):
CCTTTCCATAGGTTTATAACATAACCATTAGAACACTTACCGTTCATTCCCTATGCATGCCCGTT
GAATCACTTAGAATAATATCGGATACGCGGGAAAGCTCACATAAT
Found at i:9788741 original size:34 final size:34
Alignment explanation
Indices: 9788702--9788766 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
9788692 ATAGAAATTA
9788702 TTCCTTAAAATAATTAATTTAA-TTAATTTTATTC
1 TTCCTTAAAATAATTAA-TTAATTTAATTTTATTC
9788736 TTCCTTAAAATAATTAATTAATTTAATTTTA
1 TTCCTTAAAATAATTAATTAATTTAATTTTA
9788767 AAATTAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 4 0.13
34 26 0.87
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (34 bp):
TTCCTTAAAATAATTAATTAATTTAATTTTATTC
Found at i:9790401 original size:22 final size:21
Alignment explanation
Indices: 9790361--9790401 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
9790351 AAAAGAGATT
*
9790361 GAGAAGAGAGGAAAATAGAGG
1 GAGAAGAGAAGAAAATAGAGG
*
9790382 GAGAAGCAGAAGAGAATAGA
1 GAGAAG-AGAAGAAAATAGA
9790402 AAAAAAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.54, C:0.02, G:0.39, T:0.05
Consensus pattern (21 bp):
GAGAAGAGAAGAAAATAGAGG
Found at i:9793987 original size:41 final size:40
Alignment explanation
Indices: 9793880--9793990 Score: 111
Period size: 37 Copynumber: 2.8 Consensus size: 40
9793870 TCGGATAGTT
* *
9793880 CGAAGCAATAGTTGACACCCAGTGTCTCATCG-GCCAAGC
1 CGAAGTAATAGTTGACACCCAGTGTCTCATCGAACCAAGC
** ** * * *
9793919 CGAAGT-A-AGTTGGTACCCAGTACCTCATCGAATCTATC
1 CGAAGTAATAGTTGACACCCAGTGTCTCATCGAACCAAGC
9793957 CGAAGTAATAGTATGACACCCAGTGTCTCATCGA
1 CGAAGTAATAGT-TGACACCCAGTGTCTCATCGA
9793991 CTCAAGGTCG
Statistics
Matches: 55, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
37 19 0.35
38 10 0.18
39 6 0.11
40 3 0.05
41 17 0.31
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
CGAAGTAATAGTTGACACCCAGTGTCTCATCGAACCAAGC
Found at i:9795416 original size:40 final size:40
Alignment explanation
Indices: 9795354--9795448 Score: 145
Period size: 40 Copynumber: 2.3 Consensus size: 40
9795344 CTTTTCTTTC
* *
9795354 TTTCTTTCCTTCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
1 TTTCTTT-CTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
*
9795395 TTTCTTTCTTTCTCCCTTCTCTGTTTTGTTTTGCTCTCTG
1 TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
9795435 TTTCTTTTCTTTCT
1 TTTC-TTTCTTTCT
9795449 TTCTTTGTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
40 34 0.68
41 16 0.32
ACGTcount: A:0.00, C:0.28, G:0.08, T:0.63
Consensus pattern (40 bp):
TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
Found at i:9795474 original size:3 final size:3
Alignment explanation
Indices: 9795466--9795518 Score: 53
Period size: 3 Copynumber: 19.0 Consensus size: 3
9795456 TCATATATAT
*
9795466 ATA ATA ATA TATA ATA AT- ATA AT- ATA AT- ATA AT- ATA TTA ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9795508 ATA AT- ATA ATA
1 ATA ATA ATA ATA
9795519 TAAAAACATA
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
2 10 0.24
3 29 0.69
4 3 0.07
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
ATA
Found at i:9795477 original size:10 final size:10
Alignment explanation
Indices: 9795462--9795518 Score: 61
Period size: 8 Copynumber: 6.0 Consensus size: 10
9795452 TTTGTCATAT
9795462 ATATATAATA
1 ATATATAATA
9795472 ATATATAAT-
1 ATATATAATA
9795481 A-ATATAAT-
1 ATATATAATA
9795489 ATA-AT-ATA
1 ATATATAATA
9795497 ATATATTAATA
1 ATATA-TAATA
9795508 ATAATATAATA
1 AT-ATATAATA
9795519 TAAAAACATA
Statistics
Matches: 41, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
7 2 0.05
8 13 0.32
9 3 0.07
10 10 0.24
11 10 0.24
12 3 0.07
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
ATATATAATA
Found at i:9795489 original size:5 final size:5
Alignment explanation
Indices: 9795458--9795521 Score: 69
Period size: 5 Copynumber: 12.2 Consensus size: 5
9795448 TTTCTTTGTC
9795458 ATATA TATATA ATAATA TATAATA ATATA ATATA ATATA ATAT- AT-TA
1 ATATA -ATATA AT-ATA -AT-ATA ATATA ATATA ATATA ATATA ATATA
9795505 ATAATA ATATA ATATA A
1 AT-ATA ATATA ATATA A
9795522 AAACATAATT
Statistics
Matches: 53, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
3 1 0.02
4 4 0.08
5 28 0.53
6 14 0.26
7 6 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:9795530 original size:24 final size:23
Alignment explanation
Indices: 9795464--9795521 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
9795454 TGTCATATAT
*
9795464 ATATAATA-ATATATAATAATATA
1 ATATAATATA-ATATAATAAAATA
*
9795487 ATATAATATAATATATTAATAATA
1 ATATAATATAATATAATAA-AATA
9795511 ATATAATATAA
1 ATATAATATAA
9795522 AAACATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
23 16 0.52
24 15 0.48
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
ATATAATATAATATAATAAAATA
Found at i:9798441 original size:50 final size:50
Alignment explanation
Indices: 9798380--9798499 Score: 195
Period size: 50 Copynumber: 2.4 Consensus size: 50
9798370 CTTCCACATG
* *
9798380 ATGCACGGGTACTATCATATATTTATACTAACTAAATCAGAGAAGTCGAA
1 ATGCACAGGTACTATCATATATGTATACTAACTAAATCAGAGAAGTCGAA
*
9798430 ATGCACAGGTACTATCATATATGTATACTAACTAAATCAGAGAAGTTGAA
1 ATGCACAGGTACTATCATATATGTATACTAACTAAATCAGAGAAGTCGAA
* *
9798480 ATGCACAGCTACCATCATAT
1 ATGCACAGGTACTATCATAT
9798500 CTTTTTCATT
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 65 1.00
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (50 bp):
ATGCACAGGTACTATCATATATGTATACTAACTAAATCAGAGAAGTCGAA
Found at i:9801560 original size:21 final size:21
Alignment explanation
Indices: 9801534--9801597 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
9801524 AATTAAAAAA
9801534 ATTTAAAAAATTATTTAAATG
1 ATTTAAAAAATTATTTAAATG
* *** *
9801555 ATTTAAAAAAATATTTTTTTA
1 ATTTAAAAAATTATTTAAATG
*
9801576 ATTTTAAAAAATTAATTAAATG
1 A-TTTAAAAAATTATTTAAATG
9801598 TTAGTATGTC
Statistics
Matches: 31, Mismatches: 11, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
21 17 0.55
22 14 0.45
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (21 bp):
ATTTAAAAAATTATTTAAATG
Found at i:9802332 original size:22 final size:22
Alignment explanation
Indices: 9802269--9802343 Score: 62
Period size: 22 Copynumber: 3.4 Consensus size: 22
9802259 TCTATAAAAG
* *
9802269 TTAAAAAATAAATAC-AAATTTT
1 TTAAAAAA-AAATTCAAAAATTT
* * * *
9802291 TTTAAAAAAAGTTTACAAATTT
1 TTAAAAAAAAATTCAAAAATTT
*
9802313 TTAAAAAAAAATTCAAAAATTA
1 TTAAAAAAAAATTCAAAAATTT
*
9802335 TGAAAAAAA
1 TTAAAAAAA
9802344 TTCTTTTTGT
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
21 3 0.08
22 37 0.93
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (22 bp):
TTAAAAAAAAATTCAAAAATTT
Found at i:9808326 original size:21 final size:22
Alignment explanation
Indices: 9808302--9808347 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
9808292 AAAATGATAG
* *
9808302 CAAAATAATAAAAAA-TAGTGA
1 CAAAACAATAAAAAAGTAGTAA
*
9808323 CAAAACAGTAAAAAAGTAGTAA
1 CAAAACAATAAAAAAGTAGTAA
9808345 CAA
1 CAA
9808348 TTTTTTTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.65, C:0.09, G:0.11, T:0.15
Consensus pattern (22 bp):
CAAAACAATAAAAAAGTAGTAA
Found at i:9812334 original size:9 final size:9
Alignment explanation
Indices: 9812320--9812410 Score: 64
Period size: 9 Copynumber: 10.3 Consensus size: 9
9812310 AGTTTAGACT
9812320 AAAAAAAAC
1 AAAAAAAAC
9812329 AAAAAAAAC
1 AAAAAAAAC
*
9812338 AAAACAAA-
1 AAAAAAAAC
* *
9812346 AACAAAATC
1 AAAAAAAAC
*
9812355 -AAAAAATC
1 AAAAAAAAC
*
9812363 -AAAAAATC
1 AAAAAAAAC
**
9812371 AAAAAAATT
1 AAAAAAAAC
9812380 AAAAAAATA-
1 AAAAAAA-AC
*
9812389 AAAAAAATC
1 AAAAAAAAC
9812398 AAAAAAAATC
1 AAAAAAAA-C
9812408 AAA
1 AAA
9812411 GTCAAAAATA
Statistics
Matches: 68, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
8 20 0.29
9 44 0.65
10 4 0.06
ACGTcount: A:0.81, C:0.10, G:0.00, T:0.09
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:9814865 original size:44 final size:44
Alignment explanation
Indices: 9814803--9816008 Score: 346
Period size: 44 Copynumber: 27.6 Consensus size: 44
9814793 AGAATTTCAG
*
9814803 ATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCTAGTA
* ** ** *
9814847 ATCTTATCTCCCTAAGATTACAGTGGAGCGGATT-AAAATAAAG-G
1 ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCT--AGTA
* * * *
9814891 ATCTTATCTCTCTGA-AGTTACAGTAGAGTAGA-TCATG-TCAG--
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTGAAGCT-AGTA
** * *
9814932 ATCTTATCTCCCTGAGATTACAACGGAGCAGATTGAAGC-ACT-
1 ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCTAGTA
* * * * *
9814974 ATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATG-AAG-G
1 ATCTTATCTCCCTGAGATTACAGTGGAGTAGATT-GAA-GCTAGTA
* * * * *
9815018 ATCTTATCTCTCTGA-AGCTAC-GTAGAGTAGATCG-TG-TCAG--
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTGAAGCT-AGTA
* * *
9815058 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGC-ACT-
1 ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCTAGTA
* * * * *
9815100 ATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATG-AAG-G
1 ATCTTATCTCCCTGAGATTACAGTGGAGTAGATT-GAA-GCTAGTA
* ** * * *
9815144 ATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCG-CGCCAGGT-
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTGAAGCTA-GTA
* * ** * * **
9815187 A--TTATTTACCTGAGATTACAGTGGAACAGACTGAAGATTTTCA
1 ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCTAGT-A
* *
9815230 GATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTGGTA
1 -ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCTAGTA
* * * * * * * *
9815275 ATCCTATCTCCCTGAGTTTACAGTGGAGCAGATTAAAACCAATG
1 ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCTAGTA
* * ** * *
9815319 ATCTTATCTCTCT-AAAGTTACAGCAGAGTAGATCG-CG-TCAG--
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTGAAGCT-AGTA
* * ** ** * *
9815360 GTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAG-AATTTCA
1 ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCTA-GT-A
* *
9815405 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA
1 -ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCTAGTA
* ** ** *
9815450 ATCCTATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAG-G
1 ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCT--AGTA
* * * *
9815494 ATCTTATCTCTCTGAAGTTACAGTAGAGTTACAGCGGAGCAGATTGAAGTTAGTA
1 ATCTTATCTC-C--------CTG-AGA-TTACAGTGGAGTAGATTGAAGCTAGTA
* * ** *
9815549 ATCCTATCTCCCTGAGATTACAGTGGAGTGGATT-AAAATAAAG-G
1 ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCT--AGTA
* ** * *
9815593 ATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCG-CG-TCA-T-
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTGAAGCT-AGTA
* * * *
9815634 ATCTTATCTCTCTGAGGTTACAGTGGAGCAGATTGAAGATAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCTAGTA
* ** * ** *
9815678 ATCCTATCTCCCTGAGATTACAGTGGAGCGGAAT-AAAATAAAG-G
1 ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCT--AGTA
* ** * * *
9815722 ATCTTATCTCTCTGA-AGTTACAGCAGAGTGGATCT-CATC-AG--
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGTAGAT-TGAAGCTAGTA
* * * * *
9815763 ATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTAAAGATAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCTAGTA
* * * * ** *
9815807 ATCCTATCTCCCTAAGATTACAGTGAAGTGGATT-AAAATAAAG-G
1 ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCT--AGTA
* * ** * * * *
9815851 ATCTTAACTCTCTGA-AGTTACAGCAGAGTGGATCGCATC-AG--
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTGAAGCTAGTA
* * ** * *
9815892 GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAG-AATTTCA
1 ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCTA-GT-A
* *
9815937 GATCTTATCTCCCTGAG-TTACAGCGGAGCAGATTGAAGCTAGTA
1 -ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCTAGTA
* *
9815981 ATCCTATCTCTCTGAGATTACAGTGGAG
1 ATCTTATCTCCCTGAGATTACAGTGGAG
9816009 CGGATTAAAA
Statistics
Matches: 842, Mismatches: 229, Indels: 182
0.67 0.18 0.15
Matches are distributed among these distances:
40 19 0.02
41 171 0.20
42 81 0.10
43 59 0.07
44 357 0.42
45 37 0.04
46 82 0.10
47 1 0.00
53 2 0.00
54 6 0.01
55 24 0.03
56 3 0.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAGCTAGTA
Found at i:9814983 original size:42 final size:42
Alignment explanation
Indices: 9814931--9815121 Score: 131
Period size: 42 Copynumber: 4.5 Consensus size: 42
9814921 GATCATGTCA
*
9814931 GATCTTATCTCCCTGAGATTACAACGGAGCAGATTGAAGCAC
1 GATCCTATCTCCCTGAGATTACAACGGAGCAGATTGAAGCAC
* ** ** * * *
9814973 TATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATGAAG
1 GATCCTATCTCCCTGAGATTACAACGGAGCAGATT-GAA-GCAC
* * * * * * *
9815017 GATCTTATCTCTCTGA-A--GCTACGTAGAGTAGATCG-TGTCA-
1 GATCCTATCTCCCTGAGATTACAACG--GAGCAGATTGAAG-CAC
* *
9815057 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCAC
1 GATCCTATCTCCCTGAGATTACAACGGAGCAGATTGAAGCAC
*
9815099 TATCCTATCTCCCTGAGATTACA
1 GATCCTATCTCCCTGAGATTACA
9815122 GTGGAGTGGA
Statistics
Matches: 109, Mismatches: 30, Indels: 20
0.69 0.19 0.13
Matches are distributed among these distances:
40 16 0.15
41 14 0.13
42 51 0.47
43 13 0.12
44 15 0.14
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (42 bp):
GATCCTATCTCCCTGAGATTACAACGGAGCAGATTGAAGCAC
Found at i:9815094 original size:126 final size:127
Alignment explanation
Indices: 9814799--9815222 Score: 652
Period size: 126 Copynumber: 3.3 Consensus size: 127
9814789 CTGAAGAATT
* * * *
9814799 TCAGATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCTTATCTCCCTAAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGC-ACT-ATCCTATCTCCCTGAGA
* * *
9814864 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCATG
64 TTACAGTGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
*
9814928 TCAGATCTTATCTCCCTGAGATTACAACGGAGCAGATTGAAGCACTATCCTATCTCCCTGAGATT
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCACTATCCTATCTCCCTGAGATT
*
9814993 ACAGTGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGCTAC-GTAGAGTAGATCGTG
66 ACAGTGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
9815054 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCACTATCCTATCTCCCTGAGATT
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCACTATCCTATCTCCCTGAGATT
* *
9815119 ACAGTGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCG
66 ACAGTGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
* * * * * * * *
9815181 CCAGGTATTATTTACCTGAGATTACAGTGGAACAGACTGAAG
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG
9815223 ATTTTCAGAT
Statistics
Matches: 273, Mismatches: 21, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
126 123 0.45
127 107 0.39
128 2 0.01
129 41 0.15
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (127 bp):
TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCACTATCCTATCTCCCTGAGATT
ACAGTGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
Found at i:9815254 original size:87 final size:86
Alignment explanation
Indices: 9815143--9815438 Score: 291
Period size: 87 Copynumber: 3.4 Consensus size: 86
9815133 TAAAATGAAG
* *
9815143 GATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCGCGCCAGGTATTATTTACCTGAGATTACA
1 GATCTTATCTCCCTGAGAGTTACAGCAGAGTAGATCGCG-CAGGTATTATTTCCCTGAGATTACA
9815207 GTGGAACAGACTGAAGATTTTCA
65 GTGGAACAGACTGAAGA-TTTCA
* * * * * *
9815230 GATCTTATCTCCCTGAGA-TTACAGCGGAGTAGATTGAAGCTGGTAATCCTATCTCCCTGAGTTT
1 GATCTTATCTCCCTGAGAGTTACAGCAGAGTAGATCG-CGCAGGT-AT--TATTTCCCTGAGATT
* * **
9815294 ACAGTGGAGCAGA-TTAA-A-ACCAA
62 ACAGTGGAACAGACTGAAGATTTC-A
* * *
9815317 TGATCTTATCTCTCT-AAAGTTACAGCAGAGTAGATCGCGTCAGGTCTTATTTCCCTGAGATTAC
1 -GATCTTATCTCCCTGAGAGTTACAGCAGAGTAGATCGCG-CAGGTATTATTTCCCTGAGATTAC
*
9815381 AGTGGAACAGACCGAAGAATTTCA
64 AGTGGAACAGACTGAAG-ATTTCA
* *
9815405 GATCTTATCTCCCTGAGA-TTACAGCGGAGCAGAT
1 GATCTTATCTCCCTGAGAGTTACAGCAGAGTAGAT
9815439 TGAAGCTAGT
Statistics
Matches: 165, Mismatches: 30, Indels: 28
0.74 0.13 0.13
Matches are distributed among these distances:
85 25 0.15
86 3 0.02
87 67 0.41
88 42 0.25
89 4 0.02
90 24 0.15
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (86 bp):
GATCTTATCTCCCTGAGAGTTACAGCAGAGTAGATCGCGCAGGTATTATTTCCCTGAGATTACAG
TGGAACAGACTGAAGATTTCA
Found at i:9815343 original size:175 final size:175
Alignment explanation
Indices: 9815054--9816054 Score: 909
Period size: 175 Copynumber: 5.7 Consensus size: 175
9815044 GTAGATCGTG
*
9815054 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGC-ACT-ATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
* *
9815117 TTACAGTGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGC
66 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGC
* *
9815182 CAGGTATTATTTACCTGAGATTACAGTGGAACAGACTGAAGATTT
131 CAGGTATTATTTACCTGAGATTACAGTGGAACAGACCGAAGAATT
* * *
9815227 TCAGATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTGGTAATCCTATCTCCCTGAGT
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
* ** * * *
9815292 TTACAGTGGAGCAGATTAAAACCAATGATCTTATCTCTCTAAAGTTACAGCAGAGTAGATCGCGT
66 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGC
* *
9815357 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATT
131 CAGGTATTATTTACCTGAGATTACAGTGGAACAGACCGAAGAATT
9815402 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
* * *
9815467 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTTACAGCG-G
66 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAG-TAGATCGCG
* * *** **
9815531 AGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGA-TTAA-AA-T
130 -CCAG---GTA-TTA-T--T--TA----CCTGAGATTACAGTGGAACAGACCGAAGAATT
** * * * * * * *
9815588 AAAGGATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCG-CG-TCA-T-ATCTTATCTCTCTG
1 TCA-GATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAGCT-AGTAATCCTATCTCCCTG
* * * * * * ** **
9815648 AGGTTACAGTGGAGCAGATTGAAGAT--AGTAATCCTATCTCCCTG-AGATTACAGTGGAGCGGA
63 AGATTACAGTGGAGCGGATT-AAAATAAAG-GATCTTATCTCTCTGAAG-TTACAGCAGAGTAG-
****** * * * *
9815710 ATAAAATAAAGGATCTTATCT-CTCTGA-AGTTACA---G--CAGA--G-TGGATCT
124 AT-CGCGCCAGG-TATTATTTAC-CTGAGA-TTACAGTGGAACAGACCGAAGAAT-T
* * * *
9815757 CATCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTAAAGATAGTAATCCTATCTCCCTAA
1 --TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGA
* * * *
9815822 GATTACAGTGAAGTGGATTAAAATAAAGGATCTTAACTCTCTGAAGTTACAGCAGAGTGGATCGC
64 GATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGC
** * * * * **
9815887 ATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATT
129 GCCAGGTATTATTTACCTGAGATTACAGTGGAACAGACCGAAGAATT
*
9815934 TCAGATCTTATCTCCCTGAG-TTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCTCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
*
9815998 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTA
66 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTA
9816055 AATCACATCA
Statistics
Matches: 665, Mismatches: 111, Indels: 103
0.76 0.13 0.12
Matches are distributed among these distances:
167 1 0.00
168 2 0.00
169 1 0.00
170 47 0.07
171 7 0.01
172 10 0.02
173 101 0.15
174 97 0.15
175 250 0.38
176 8 0.01
177 3 0.00
178 3 0.00
179 1 0.00
180 3 0.00
181 2 0.00
182 4 0.01
183 5 0.01
184 53 0.08
185 9 0.01
186 5 0.01
187 32 0.05
188 2 0.00
189 19 0.03
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (175 bp):
TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGC
CAGGTATTATTTACCTGAGATTACAGTGGAACAGACCGAAGAATT
Found at i:9815594 original size:99 final size:99
Alignment explanation
Indices: 9815423--9815621 Score: 371
Period size: 99 Copynumber: 2.0 Consensus size: 99
9815413 CTCCCTGAGA
9815423 TTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAA
1 TTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAA
*
9815488 TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAG
66 TAAAGGATCTTATCTCTCTGAAGTTACAGCAGAG
* *
9815522 TTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAA
1 TTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAA
9815587 TAAAGGATCTTATCTCTCTGAAGTTACAGCAGAG
66 TAAAGGATCTTATCTCTCTGAAGTTACAGCAGAG
9815621 T
1 T
9815622 AGATCGCGTC
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 97 1.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (99 bp):
TTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAA
TAAAGGATCTTATCTCTCTGAAGTTACAGCAGAG
Found at i:9815767 original size:129 final size:129
Alignment explanation
Indices: 9815521--9815919 Score: 663
Period size: 129 Copynumber: 3.1 Consensus size: 129
9815511 TTACAGTAGA
*
9815521 GTTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAA
1 GTTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAA
* * * *
9815586 ATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCATATCTTATCTCTCTGAG
66 ATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTGGATCGCATCAGATCTTATCTCCCTGAG
* * *
9815650 GTTACAGTGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGAATAAA
1 GTTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAA
*
9815715 ATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTGGATCTCATCAGATCTTATCTCCCTGAG
66 ATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTGGATCGCATCAGATCTTATCTCCCTGAG
* * *
9815779 GTTACAGCGGAGCAGATTAAAGATAGTAATCCTATCTCCCTAAGATTACAGTGAAGTGGATTAAA
1 GTTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAA
* *
9815844 ATAAAGGATCTTAACTCTCTGAAGTTACAGCAGAGTGGATCGCATCAGGTCTTATCTCCCTGAG
66 ATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTGGATCGCATCAGATCTTATCTCCCTGAG
*
9815908 GTTACAGTGGAG
1 GTTACAGCGGAG
9815920 TAGACCGAAG
Statistics
Matches: 251, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
129 251 1.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (129 bp):
GTTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAA
ATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTGGATCGCATCAGATCTTATCTCCCTGAG
Found at i:9817564 original size:3 final size:3
Alignment explanation
Indices: 9817556--9817581 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9817546 TTTGTTAACT
9817556 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
9817582 TTCCTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:9832455 original size:17 final size:17
Alignment explanation
Indices: 9832433--9832466 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
9832423 GTTTAAAGAA
9832433 AGAATTTGAGATGAAAG
1 AGAATTTGAGATGAAAG
9832450 AGAATTTGAGATGAAAG
1 AGAATTTGAGATGAAAG
9832467 CTCTTGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.24
Consensus pattern (17 bp):
AGAATTTGAGATGAAAG
Found at i:9842078 original size:279 final size:278
Alignment explanation
Indices: 9841568--9842122 Score: 995
Period size: 279 Copynumber: 2.0 Consensus size: 278
9841558 TGTCCACCTT
*
9841568 AATCAATTTTTTTATTAACTTTCATCACCTCATAATTTATTTATTAATTTTTTATATACTGGTTA
1 AATCAAATTTTTTATTAACTTTCATCACCTCATAATTTATTTATTAATTTTTTATATACTGGTTA
* * * *
9841633 GCTTCTTTGCTTGCTTAGTTGCTTCAATTATCTTCATATTCTTGTCACTATGTATTTTGGAGTTA
66 GCTTCTTTGCTTGCTTAATTGCTTCAATTATCTTCAGATTCTTGTCACTATGTATTTTAGAATTA
9841698 AAAAATATATTAAATGTAAAAATATGATTTTTTAATAAAAGTTATTTTAAAAATAAAATGTGAAA
131 AAAAATATATTAAATGTAAAAATATGATTTTTTAATAAAAGTTATTTTAAAAATAAAATGTGAAA
*
9841763 TTGATACCAATATAAAATTTTAACACAAATATTTTATGGCATAATTAATAATTCAATTTTAATAT
196 TTGATACCAATATAAAATTTTAACACAAATATTTTATGACATAATTAATAATTCAATTTTAATAT
9841828 AAATATTCAATATGACTA
261 AAATATTCAATATGACTA
*
9841846 AANTCAAATTTTTTATTAACTTTCATCACTTCATAATTTATTTATTAATTTTTTATATACTGGTT
1 AA-TCAAATTTTTTATTAACTTTCATCACCTCATAATTTATTTATTAATTTTTTATATACTGGTT
* *
9841911 AGCTTCTTTGCTTGCTTAATTGTTTCAATTATTTTCAGATTCTTGTCACTATGTATTTTAGAATT
65 AGCTTCTTTGCTTGCTTAATTGCTTCAATTATCTTCAGATTCTTGTCACTATGTATTTTAGAATT
9841976 AAAAAATATATTAAATGTAAAAATATGATTTTTTAATAAAAGTTATTTTAAAAATAAAATGTGAA
130 AAAAAATATATTAAATGTAAAAATATGATTTTTTAATAAAAGTTATTTTAAAAATAAAATGTGAA
*
9842041 ATTGATACCAATATAAAATTTTAACACGAAA-ATTTTATGACATAATTAATAATTCAGTTTTAAT
195 ATTGATACCAATATAAAATTTTAACAC-AAATATTTTATGACATAATTAATAATTCAATTTTAAT
9842105 ATAAATATTCAATATGAC
259 ATAAATATTCAATATGAC
9842123 CAAACAATTC
Statistics
Matches: 265, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
278 2 0.01
279 260 0.98
280 3 0.01
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.45
Consensus pattern (278 bp):
AATCAAATTTTTTATTAACTTTCATCACCTCATAATTTATTTATTAATTTTTTATATACTGGTTA
GCTTCTTTGCTTGCTTAATTGCTTCAATTATCTTCAGATTCTTGTCACTATGTATTTTAGAATTA
AAAAATATATTAAATGTAAAAATATGATTTTTTAATAAAAGTTATTTTAAAAATAAAATGTGAAA
TTGATACCAATATAAAATTTTAACACAAATATTTTATGACATAATTAATAATTCAATTTTAATAT
AAATATTCAATATGACTA
Found at i:9842311 original size:16 final size:16
Alignment explanation
Indices: 9842290--9842320 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9842280 GGAGAAAATA
*
9842290 AAAAGTTTTAGGGAAT
1 AAAAGTTTGAGGGAAT
9842306 AAAAGTTTGAGGGAA
1 AAAAGTTTGAGGGAA
9842321 AGTAAATAGG
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:0.45, C:0.00, G:0.29, T:0.26
Consensus pattern (16 bp):
AAAAGTTTGAGGGAAT
Found at i:9842674 original size:9 final size:9
Alignment explanation
Indices: 9842660--9842696 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
9842650 TATAGTTTGA
*
9842660 TATTCGAAC
1 TATTCGAAT
9842669 TATTCGAAT
1 TATTCGAAT
*
9842678 TATTCGAGT
1 TATTCGAAT
9842687 TATTCGAAT
1 TATTCGAAT
9842696 T
1 T
9842697 CGAAAATTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.43
Consensus pattern (9 bp):
TATTCGAAT
Found at i:9844638 original size:13 final size:13
Alignment explanation
Indices: 9844620--9844679 Score: 50
Period size: 13 Copynumber: 4.6 Consensus size: 13
9844610 TCTTCATTGT
9844620 TTTTAAAAAGTGC
1 TTTTAAAAAGTGC
**
9844633 TTTTAAGGAGTGC
1 TTTTAAAAAGTGC
* *
9844646 TTTT-AAGAGTGA
1 TTTTAAAAAGTGC
* *
9844658 TTTTGAGAAGTGC
1 TTTTAAAAAGTGC
9844671 TTTTGAAAA
1 TTTT-AAAA
9844680 TTTTGGGTGT
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
12 10 0.28
13 24 0.67
14 2 0.06
ACGTcount: A:0.32, C:0.05, G:0.23, T:0.40
Consensus pattern (13 bp):
TTTTAAAAAGTGC
Found at i:9844661 original size:12 final size:13
Alignment explanation
Indices: 9844628--9844674 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
9844618 GTTTTTAAAA
9844628 AGTGCTTTTAAGG
1 AGTGCTTTTAAGG
9844641 AGTGCTTTTAA-G
1 AGTGCTTTTAAGG
* * *
9844653 AGTGATTTTGAGA
1 AGTGCTTTTAAGG
9844666 AGTGCTTTT
1 AGTGCTTTT
9844675 GAAAATTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
12 10 0.34
13 19 0.66
ACGTcount: A:0.23, C:0.06, G:0.28, T:0.43
Consensus pattern (13 bp):
AGTGCTTTTAAGG
Found at i:9848971 original size:29 final size:29
Alignment explanation
Indices: 9848929--9848986 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
9848919 AACTCCAAAA
9848929 AACCAGCAGAGGGGAAAGAACGTTTGGGG
1 AACCAGCAGAGGGGAAAGAACGTTTGGGG
*
9848958 AACCGGCAGAGGGGAAAGAACGTTTGGGG
1 AACCAGCAGAGGGGAAAGAACGTTTGGGG
9848987 GAGAAGACAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.14, G:0.43, T:0.10
Consensus pattern (29 bp):
AACCAGCAGAGGGGAAAGAACGTTTGGGG
Found at i:9850100 original size:21 final size:22
Alignment explanation
Indices: 9850076--9850158 Score: 70
Period size: 21 Copynumber: 4.0 Consensus size: 22
9850066 ACCAAAAATT
9850076 TATTTTAAAAAT-TTTAAAAAG
1 TATTTTAAAAATATTTAAAAAG
*
9850097 TATTTTAAAAATATTT-TAAA-
1 TATTTTAAAAATATTTAAAAAG
* *
9850117 -A-TTAAAAAAGTATTTTAAAAAA
1 TATTTTAAAAA-TA-TTTAAAAAG
*
9850139 T-TTTTAAAAATATTTTAAAA
1 TATTTTAAAAATATTTAAAAA
9850159 TTAAAAAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
18 7 0.14
19 3 0.06
20 3 0.06
21 25 0.50
22 5 0.10
23 7 0.14
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
TATTTTAAAAATATTTAAAAAG
Found at i:9850111 original size:11 final size:11
Alignment explanation
Indices: 9850076--9850158 Score: 81
Period size: 11 Copynumber: 7.9 Consensus size: 11
9850066 ACCAAAAATT
9850076 TATTTT-AAAA
1 TATTTTAAAAA
9850086 -ATTTTAAAAA
1 TATTTTAAAAA
9850096 GTATTTTAAAAA
1 -TATTTTAAAAA
9850108 TATTTT--AAA
1 TATTTTAAAAA
*
9850117 -A-TTAAAAAA
1 TATTTTAAAAA
9850126 GTATTTTAAAAA
1 -TATTTTAAAAA
9850138 -ATTTTTAAAAA
1 TA-TTTTAAAAA
9850149 TATTTTAAAA
1 TATTTTAAAA
9850159 TTAAAAAAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 19
0.74 0.02 0.23
Matches are distributed among these distances:
7 2 0.03
8 1 0.02
9 11 0.18
10 5 0.08
11 24 0.39
12 18 0.30
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:9850149 original size:41 final size:42
Alignment explanation
Indices: 9850086--9850226 Score: 152
Period size: 41 Copynumber: 3.5 Consensus size: 42
9850076 TATTTTAAAA
*
9850086 ATTTTAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAGT
1 ATTTTAAAAAATATTTTAAAAATATTTTAAAATTAAAAAAGT
9850128 ATTTTAAAAAAT-TTTTAAAAATATTTTAAAATTAAAAAA--
1 ATTTTAAAAAATATTTTAAAAATATTTTAAAATTAAAAAAGT
* * *** *
9850167 A-ATT-AAAAATATTTTAAAATTA-AAAAATAATAAAAAAAGT
1 ATTTTAAAAAATATTTTAAAAATATTTTAA-AATTAAAAAAGT
*
9850207 ATTTT-AAAATTATTTTAAAA
1 ATTTTAAAAAATATTTTAAAA
9850227 TTTAAAAAAT
Statistics
Matches: 85, Mismatches: 9, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
37 8 0.09
38 21 0.25
39 1 0.01
40 1 0.01
41 43 0.51
42 11 0.13
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (42 bp):
ATTTTAAAAAATATTTTAAAAATATTTTAAAATTAAAAAAGT
Found at i:9850172 original size:27 final size:28
Alignment explanation
Indices: 9850131--9850218 Score: 124
Period size: 27 Copynumber: 3.1 Consensus size: 28
9850121 AAAAAGTATT
**
9850131 TTAAAAAATTTTTAAAAATATTTTAAAA
1 TTAAAAAATAATTAAAAATATTTTAAAA
9850159 TTAAAAAA-AATTAAAAATATTTTAAAA
1 TTAAAAAATAATTAAAAATATTTTAAAA
*
9850186 TTAAAAAATAATAAAAAAAGTATTTTAAAA
1 TTAAAAAATAAT-TAAAAA-TATTTTAAAA
9850216 TTA
1 TTA
9850219 TTTTAAAATT
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
27 25 0.46
28 11 0.20
29 5 0.09
30 13 0.24
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (28 bp):
TTAAAAAATAATTAAAAATATTTTAAAA
Found at i:9850183 original size:68 final size:68
Alignment explanation
Indices: 9850101--9850235 Score: 202
Period size: 68 Copynumber: 2.0 Consensus size: 68
9850091 AAAAAGTATT
* *
9850101 TTAAAAATATTTTAAAATTAAAAAAGTATTTTAAAAAA-T-TTTTAAAAATATTTTAAAATTAAA
1 TTAAAAATATTTTAAAATTAAAAAA-TA-ATAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
9850164 AAAAA
64 AAAAA
* *
9850169 TTAAAAATATTTTAAAATTAAAAAATAATAAAAAAAGTATTTTAAAATTATTTTAAAATTTAAAA
1 TTAAAAATATTTTAAAATTAAAAAATAATAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAA
9850234 AA
66 AA
9850236 TAAATATATT
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
66 7 0.11
67 3 0.05
68 51 0.84
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (68 bp):
TTAAAAATATTTTAAAATTAAAAAATAATAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAA
AAA
Found at i:9850203 original size:18 final size:17
Alignment explanation
Indices: 9850153--9850203 Score: 50
Period size: 18 Copynumber: 3.0 Consensus size: 17
9850143 TAAAAATATT
*
9850153 TTAAAATTAA-AAAAAA
1 TTAAAAATAATAAAAAA
* **
9850169 TTAAAAATATTTTAAAA
1 TTAAAAATAATAAAAAA
9850186 TTAAAAAATAATAAAAAA
1 TT-AAAAATAATAAAAAA
9850204 AGTATTTTAA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
16 8 0.31
17 6 0.23
18 12 0.46
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TTAAAAATAATAAAAAA
Found at i:9852521 original size:28 final size:27
Alignment explanation
Indices: 9852488--9852585 Score: 119
Period size: 28 Copynumber: 3.6 Consensus size: 27
9852478 TAATGAGATT
9852488 AGCACTAAGTGTGCGAGTTTAATTGAA
1 AGCACTAAGTGTGCGAGTTTAATTGAA
* *
9852515 ATGCACTAAGTGTGCGAGTATAA-GGTAA
1 A-GCACTAAGTGTGCGAGTTTAATTG-AA
*
9852543 AGCACTAAGTGTGCGAGTTTGATT-ATTA
1 AGCACTAAGTGTGCGAGTTTAATTGA--A
9852571 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
9852586 TACTTATTAA
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
26 1 0.02
27 21 0.34
28 39 0.64
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTTAATTGAA
Found at i:9853638 original size:47 final size:47
Alignment explanation
Indices: 9853572--9853818 Score: 363
Period size: 47 Copynumber: 5.3 Consensus size: 47
9853562 CCAAATTTGA
*
9853572 TGTCC-ATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
1 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGC
*
9853618 TGTCCAATTTTGAATGTATTGATGCTGTCCATTTTAATGTATAATGC
1 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGC
* * *
9853665 TGTCCAATTTTGAGTGTACTAATGCTGTCCATTTTAATGTATGATGC
1 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGC
*
9853712 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATATATAATGC
1 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGC
* * * * * * *
9853759 TTTCCAATTTTGAGTATATTTAAGCTGTCTAATTTGATGTATAATGC
1 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGC
9853806 TGTCC-ATTTTGAG
1 TGTCCAATTTTGAG
9853819 CATATTATTG
Statistics
Matches: 181, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
46 13 0.07
47 168 0.93
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.45
Consensus pattern (47 bp):
TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGC
Found at i:9853854 original size:141 final size:141
Alignment explanation
Indices: 9853572--9853859 Score: 373
Period size: 141 Copynumber: 2.0 Consensus size: 141
9853562 CCAAATTTGA
* *
9853572 TGTCC-ATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGAATGTA
1 TGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATATATAATGCTGTCCAATTTTGAATATA
* * ** * *
9853636 TTGATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGAGTGTACTAATGCTGTCCATTTTA
66 TTGAAGCTGTCCAATTTAATGTATAATGCTGTCCAATTTTGAGCATACTAATGCTGTCAAATTTA
* *
9853701 ATGTATGATGC
131 ATGAATAATGC
* * *
9853712 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATATATAATGCTTTCCAATTTTGAGTATA
1 TGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATATATAATGCTGTCCAATTTTGAATATA
* * * * * *
9853777 TTTAAGCTGTCTAATTTGATGTATAATGCTGTCC-ATTTTGAGCATATTATTGCTGTCAAATTTG
66 TTGAAGCTGTCCAATTTAATGTATAATGCTGTCCAATTTTGAGCATACTAATGCTGTCAAATTTA
*
9853841 TTGAATAATTGC
131 ATGAATAA-TGC
9853853 TGTCCAA
1 TGTCCAA
9853860 AACAGGGTTG
Statistics
Matches: 126, Mismatches: 20, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
140 33 0.26
141 93 0.74
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.44
Consensus pattern (141 bp):
TGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATATATAATGCTGTCCAATTTTGAATATA
TTGAAGCTGTCCAATTTAATGTATAATGCTGTCCAATTTTGAGCATACTAATGCTGTCAAATTTA
ATGAATAATGC
Found at i:9853859 original size:94 final size:94
Alignment explanation
Indices: 9853572--9853859 Score: 352
Period size: 94 Copynumber: 3.1 Consensus size: 94
9853562 CCAAATTTGA
* * *
9853572 TGTCC-ATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGAATGTA
1 TGTCCAATTTTGAGTATATTTAAGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGAGTGTA
*
9853636 TTGATGCTGTCCATTTTAATGTATAATGC
66 TTGATGCTGTCCATTTTAATGAATAATGC
* * *
9853665 TGTCCAATTTTGAGTGTA-CTAATGCTGTCCATTTTAATGTATGATGCTGTCCAATTTTGAGTGT
1 TGTCCAATTTTGAGTATATTTAA-GCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGAGTGT
9853729 ATTGATGCTGTCCATTTTAAT-ATATAATGC
65 ATTGATGCTGTCCATTTTAATGA-ATAATGC
* * * * **
9853759 TTTCCAATTTTGAGTATATTTAAGCTGTCTAATTTGATGTATAATGCTGTCC-ATTTTGAGCATA
1 TGTCCAATTTTGAGTATATTTAAGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGAGTGTA
* * **
9853823 TT-ATTGCTGTCAAATTTGTTGAATAATTGC
66 TTGA-TGCTGTCCATTTTAATGAATAA-TGC
9853853 TGTCCAA
1 TGTCCAA
9853860 AACAGGGTTG
Statistics
Matches: 167, Mismatches: 21, Indels: 13
0.83 0.10 0.06
Matches are distributed among these distances:
92 1 0.01
93 34 0.20
94 129 0.77
95 3 0.02
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.44
Consensus pattern (94 bp):
TGTCCAATTTTGAGTATATTTAAGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGAGTGTA
TTGATGCTGTCCATTTTAATGAATAATGC
Found at i:9857327 original size:37 final size:37
Alignment explanation
Indices: 9857280--9857385 Score: 119
Period size: 37 Copynumber: 2.9 Consensus size: 37
9857270 CATGCTAGAA
*
9857280 GCTCATAAGAGCTAATCCACACGATAACACGCCAATT
1 GCTCATAAGAGCTAATCCACACGATAACACGCCAAAT
* *
9857317 GCTC-TGAAGAGCTAGTCCA-ACCG-TAAACACACCAAAT
1 GCTCAT-AAGAGCTAATCCACA-CGAT-AACACGCCAAAT
* *
9857354 GCTCATTAGAGCTAATCCACCCGATAACACGC
1 GCTCATAAGAGCTAATCCACACGATAACACGC
9857386 TAAAATAATG
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
36 3 0.05
37 51 0.91
38 2 0.04
ACGTcount: A:0.36, C:0.31, G:0.15, T:0.18
Consensus pattern (37 bp):
GCTCATAAGAGCTAATCCACACGATAACACGCCAAAT
Found at i:9866802 original size:12 final size:12
Alignment explanation
Indices: 9866785--9866809 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9866775 TCGCCAACAT
9866785 ATTTCTTTTGGA
1 ATTTCTTTTGGA
9866797 ATTTCTTTTGGA
1 ATTTCTTTTGGA
9866809 A
1 A
9866810 AAATTCCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.08, G:0.16, T:0.56
Consensus pattern (12 bp):
ATTTCTTTTGGA
Found at i:9874191 original size:33 final size:33
Alignment explanation
Indices: 9874143--9874205 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
9874133 TTTTATGATT
* *
9874143 TTAGAGTTTTGTTAAAATAATTTAGGGTTAAAG
1 TTAGAGTTTTCTTAAAATAATTTAGAGTTAAAG
*
9874176 TTAGGGTTTTCTTAAAATAATTTAGAGTTA
1 TTAGAGTTTTCTTAAAATAATTTAGAGTTA
9874206 GGTTTTAAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.35, C:0.02, G:0.19, T:0.44
Consensus pattern (33 bp):
TTAGAGTTTTCTTAAAATAATTTAGAGTTAAAG
Found at i:9874316 original size:34 final size:34
Alignment explanation
Indices: 9874278--9874342 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
9874268 GTTTTTGGGG
*
9874278 TTTTAA-ATAAATTAATTAAATTGGGGTTTAGAGC
1 TTTTAAGA-AAATTAATTAAATTAGGGTTTAGAGC
*
9874312 TTTTAAGAAAATTAATTAAATTATGGTTTAG
1 TTTTAAGAAAATTAATTAAATTAGGGTTTAG
9874343 TTTTTAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 27 0.96
35 1 0.04
ACGTcount: A:0.40, C:0.02, G:0.15, T:0.43
Consensus pattern (34 bp):
TTTTAAGAAAATTAATTAAATTAGGGTTTAGAGC
Found at i:9874574 original size:125 final size:124
Alignment explanation
Indices: 9874432--9874664 Score: 290
Period size: 125 Copynumber: 1.9 Consensus size: 124
9874422 AGTAGTTCTT
*
9874432 AAAAAAATTTTGAGAAGACGATTCTGAA-AAGATAAAATAAAAAACGCTTCAAGTAGGATGCAAT
1 AAAAAAATTTTGAGAAGACGATTCTGAACAA-ATAAAATAAAAAACGCTTCAAGCAGGATGCAAT
** *
9874496 ATCAACAAAATT-ACTGAAAAAGTTTCCACGTGGACGCTCTTTTTTCATAATAATTCATGA
65 ATCAACAAAATTGA-TGAAAAAACTCCCACGTGGACGCTCTTTTTTCATAATAATTCATGA
* **** * *
9874556 AAAAATAATTTTGAGAAGACGGTTCTGAACAAATGGTGTTAAAAACGCTTCAAGCAGGATGCACT
1 AAAAA-AATTTTGAGAAGACGATTCTGAACAAATAAAATAAAAAACGCTTCAAGCAGGATGCAAT
* * * *
9874621 GTTAGCAAAATTGATGAAAAAACTCCCACGTGGACGTTCTTTTT
65 ATCAACAAAATTGATGAAAAAACTCCCACGTGGACGCTCTTTTT
9874665 CTACTGTAGT
Statistics
Matches: 91, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
124 5 0.05
125 83 0.91
126 3 0.03
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (124 bp):
AAAAAAATTTTGAGAAGACGATTCTGAACAAATAAAATAAAAAACGCTTCAAGCAGGATGCAATA
TCAACAAAATTGATGAAAAAACTCCCACGTGGACGCTCTTTTTTCATAATAATTCATGA
Found at i:9877750 original size:25 final size:25
Alignment explanation
Indices: 9877722--9877773 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
9877712 AAGAACTATT
*
9877722 TTATTAAAA-ATATAAAAACAATTTA
1 TTATTAAAATAT-TAAAAACAACTTA
*
9877747 TTATTGAAATATTAAAAACAACTTA
1 TTATTAAAATATTAAAAACAACTTA
9877772 TT
1 TT
9877774 TTATTAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 22 0.92
26 2 0.08
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (25 bp):
TTATTAAAATATTAAAAACAACTTA
Found at i:9877936 original size:21 final size:21
Alignment explanation
Indices: 9877911--9877964 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
9877901 CTTTCGATGG
9877911 GGGTTGTGGTTGCTCCAGCAA
1 GGGTTGTGGTTGCTCCAGCAA
** **
9877932 GGGTTGTGGTTGCTCTGGCGG
1 GGGTTGTGGTTGCTCCAGCAA
9877953 GGGTTGTGGTTG
1 GGGTTGTGGTTG
9877965 TGGGTGTTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.06, C:0.13, G:0.48, T:0.33
Consensus pattern (21 bp):
GGGTTGTGGTTGCTCCAGCAA
Found at i:9879807 original size:25 final size:24
Alignment explanation
Indices: 9879770--9879821 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
9879760 ACTGTTACAA
* *
9879770 AAAATTATAAAAT-AAAAATTAATT
1 AAAATTACAAAATGAAAAAAT-ATT
9879794 AAAATTACAGAAATGAAAAAATATT
1 AAAATTACA-AAATGAAAAAATATT
9879819 AAA
1 AAA
9879822 TAATATTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 8 0.33
25 10 0.42
26 6 0.25
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (24 bp):
AAAATTACAAAATGAAAAAATATT
Found at i:9880991 original size:40 final size:39
Alignment explanation
Indices: 9880945--9881037 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 39
9880935 AAATATATTT
9880945 ATTTTTTTAATTTTTTTTAATTTTAAAATA-TTTGTAAA
1 ATTTTTTTAATTTTTTTTAATTTTAAAATACTTTGTAAA
* *
9880983 ATACTTTTTT-TTTATTTTTTAATTTTAAAATACTTTTTAAA
1 AT--TTTTTTAATT-TTTTTTAATTTTAAAATACTTTGTAAA
9881024 ATTTTTTTAATTTT
1 ATTTTTTTAATTTT
9881038 AAAATATTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
38 2 0.04
39 10 0.21
40 26 0.55
41 9 0.19
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.66
Consensus pattern (39 bp):
ATTTTTTTAATTTTTTTTAATTTTAAAATACTTTGTAAA
Found at i:9881028 original size:28 final size:27
Alignment explanation
Indices: 9880996--9881053 Score: 98
Period size: 29 Copynumber: 2.1 Consensus size: 27
9880986 CTTTTTTTTT
9880996 ATTTTTTAATTTTAAAATACTTTTTAAA
1 ATTTTTTAATTTTAAAATA-TTTTTAAA
9881024 ATTTTTTTAATTTTAAAATATTTTTAAA
1 A-TTTTTTAATTTTAAAATATTTTTAAA
9881052 AT
1 AT
9881054 ACTTTTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
27 1 0.03
28 10 0.34
29 18 0.62
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (27 bp):
ATTTTTTAATTTTAAAATATTTTTAAA
Found at i:9881037 original size:17 final size:17
Alignment explanation
Indices: 9881017--9881050 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9881007 TTAAAATACT
*
9881017 TTTTAAAATTTTTTTAA
1 TTTTAAAATATTTTTAA
9881034 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
9881051 AATACTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:9881081 original size:21 final size:21
Alignment explanation
Indices: 9881043--9881082 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9881033 ATTTTAAAAT
**
9881043 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
9881064 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
9881083 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:9881089 original size:22 final size:21
Alignment explanation
Indices: 9881042--9881100 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
9881032 AATTTTAAAA
* *
9881042 TATTTTTAAAAT-ACTTTTTT
1 TATTTTTAAAATAAATTTTTG
9881062 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAATAAATTTTT-G
9881085 TATTTATTAAAA-AAAT
1 TATTT-TTAAAATAAAT
9881101 GGGCCGGGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 1 0.03
21 11 0.33
22 14 0.42
23 7 0.21
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTTG
Found at i:9884004 original size:16 final size:15
Alignment explanation
Indices: 9883980--9884012 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
9883970 ACTAAAATTT
9883980 TTTTGTATTATATTA
1 TTTTGTATTATATTA
9883995 TTTTGCTATTATATTA
1 TTTTG-TATTATATTA
9884011 TT
1 TT
9884013 ATTATATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.67
Consensus pattern (15 bp):
TTTTGTATTATATTA
Found at i:9886526 original size:4 final size:4
Alignment explanation
Indices: 9886517--9886548 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
9886507 GTAGATTTCA
9886517 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
9886549 GCACCTTAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:9892735 original size:21 final size:21
Alignment explanation
Indices: 9892694--9892732 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
9892684 GTTTATGTTT
* *
9892694 TATTATTTTAACCATTATTAA
1 TATTATTATAACCATGATTAA
9892715 TATTATTATAA-CATGATT
1 TATTATTATAACCATGATT
9892733 TAACATAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (21 bp):
TATTATTATAACCATGATTAA
Found at i:9895309 original size:31 final size:30
Alignment explanation
Indices: 9895243--9895310 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
9895233 ACGATAACAT
*
9895243 AGTGACTAAAATGTAACATTTCAAACATAA
1 AGTGACTAAAATGTAACATTGCAAACATAA
9895273 A-TGACTAAAATGTAAC-TTAAGGCAAACA-AA
1 AGTGACTAAAATGTAACATT---GCAAACATAA
9895303 AGTGACTA
1 AGTGACTA
9895311 TTTTAATAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
28 2 0.06
29 15 0.45
30 4 0.12
31 12 0.36
ACGTcount: A:0.50, C:0.13, G:0.13, T:0.24
Consensus pattern (30 bp):
AGTGACTAAAATGTAACATTGCAAACATAA
Found at i:9896487 original size:20 final size:20
Alignment explanation
Indices: 9896443--9896488 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
9896433 ATTTTTGGAG
9896443 TTTTTATTACTTTTAATAAT
1 TTTTTATTACTTTTAATAAT
*
9896463 CTTTTATTTA-TTATTAAT-AT
1 TTTTTA-TTACTT-TTAATAAT
9896483 TTTTTA
1 TTTTTA
9896489 AATTATTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTTATTACTTTTAATAAT
Found at i:9898504 original size:27 final size:27
Alignment explanation
Indices: 9898474--9898541 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
9898464 AATATATATG
*
9898474 TACATATTATAAAA-ATGTATAAACATA
1 TACATATTATAAAACATG-AGAAACATA
* *
9898501 TACAAATTATAAAACATGGGAAACATA
1 TACATATTATAAAACATGAGAAACATA
* *
9898528 TAAATGTTATAAAA
1 TACATATTATAAAA
9898542 TATAAATGTA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 31 0.91
28 3 0.09
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.29
Consensus pattern (27 bp):
TACATATTATAAAACATGAGAAACATA
Found at i:9898560 original size:16 final size:16
Alignment explanation
Indices: 9898522--9898561 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
9898512 AAACATGGGA
9898522 AACATATAAATGTTAT
1 AACATATAAATGTTAT
*
9898538 AAAATATAAATG-TAT
1 AACATATAAATGTTAT
9898553 ATACATATA
1 A-ACATATA
9898562 TATAAAAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (16 bp):
AACATATAAATGTTAT
Found at i:9898686 original size:3 final size:3
Alignment explanation
Indices: 9898678--9898716 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
9898668 ATATGTAAGT
* *
9898678 ATA ATA ATA AT- ATA ATA ATG ATA ATA ATA ATA ATT ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
9898717 CCACTATATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:9900330 original size:50 final size:50
Alignment explanation
Indices: 9900276--9901111 Score: 440
Period size: 50 Copynumber: 16.7 Consensus size: 50
9900266 TACACCGCTA
* * * *
9900276 GGGAAGTAAGATCCGTCATTGTGGCTTCAATCTTTTGAATTGCAATGTCG
1 GGGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCG
** * * * ** * * ** *
9900326 GGGAAACCATATCCGCCTTTGTAGCTTCAATCTGCTCTACTGCACCG-CTA
1 GGGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGTC-G
* *
9900376 GGGAAATAAGATCCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCG
1 GGGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCG
* ** * * ** * * * *
9900426 GGAAAACCAGATCCTCCGTTGTAGCTTCAATCTGCTCCACTG-AACCGTCA
1 GGGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTCAATTGCAA-TGTCG
*
9900476 GGGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCG
1 GGGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCG
** * * * * * * **** *
9900526 GGGAAACCAGATCAGCCGTCGTAGCTTCAATCTGTTCCACTGCACCACCA
1 GGGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCG
* * * * * *
9900576 GGGAAATAAGATCCACTGTTATGGCTTTAATCTTTTTAATTACAATGTCG
1 GGGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCG
* ** * * * * * ** *
9900626 GGGAAATAAGATTCGCCGTTACGACTTCAATCTATTCTACTACACCGTCA
1 GGGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCG
* * ** *
9900676 GAGAAGTAAGATCCATCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCG
1 GGGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCG
** * * * * * ** * *
9900726 GGGAAACCAGATCCTCCGTCGTAGCTTCAA--TTTGCTACACTGCACCGCCA
1 GGGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTC-A-ATTGCAATGTCG
* *
9900776 GGGAAATAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCG
1 GGGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCG
** * ** ** * * * * * *
9900826 GGGAAACCAGATCCGCCGTCGCAGCTTCAATCTGCTCCACTGTACTGCCA
1 GGGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCG
* ** * * *
9900876 GAGAAATAAGATTTGCCGTTGTGGCTTCAATCTTTTTAATTACAATGTTG
1 GGGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCG
** * * * * **** *
9900926 GGGAAACCAGATCCGCCGTCGTAGCTTCAAT-TTGTTCCACTGCACCACCA
1 GGGAAATAAGATCCGCCGTTGTGGCTTCAATCTT-TTCAATTGCAATGTCG
* * * *
9900976 GGGAAATAAGATCCACCGTTATGGCTTCAATCTTTTTAATTACAATGTCG
1 GGGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCG
*** * * * * * * * ** *
9901026 GGGAAACCGGATCCACCGTCGTAGCTTCAATCTATTCCACTACACCGTCA
1 GGGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCG
* * *
9901076 GGGAAATAAGATCTGCCGTTGTGACTTCAATTTTTT
1 GGGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTT
9901112 TCACAGTAAT
Statistics
Matches: 544, Mismatches: 232, Indels: 20
0.68 0.29 0.03
Matches are distributed among these distances:
48 3 0.01
49 6 0.01
50 526 0.97
51 6 0.01
52 3 0.01
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (50 bp):
GGGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCG
Found at i:9900374 original size:100 final size:100
Alignment explanation
Indices: 9900250--9901112 Score: 1070
Period size: 100 Copynumber: 8.6 Consensus size: 100
9900240 GATATTACGA
* * * * * *
9900250 CTTCAATCTATTCCACTACACCGCTAGGGAAGTAAGATCCGTCATTGTGGCTTCAATCTTTTGAA
1 CTTCAATCTGTTCCACTGCACCGCTAGGGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTTAA
* * *
9900315 TTGCAATGTCGGGGAAACCATATCCGCCTTTGTAG
66 TTGCAATGTCGGGGAAACCAGATCCGCCGTCGTAG
* * *
9900350 CTTCAATCTGCTCTACTGCACCGCTAGGGAAATAAGATCCACCGTTGTGGCTTCAATCTTTTTAA
1 CTTCAATCTGTTCCACTGCACCGCTAGGGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTTAA
* * *
9900415 TTGCAATGTCGGGAAAACCAGATCCTCCGTTGTAG
66 TTGCAATGTCGGGGAAACCAGATCCGCCGTCGTAG
* *
9900450 CTTCAATCTGCTCCACTGAACCG-TCAGGGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTTA
1 CTTCAATCTGTTCCACTGCACCGCT-AGGGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTTA
*
9900514 ATTGCAATGTCGGGGAAACCAGATCAGCCGTCGTAG
65 ATTGCAATGTCGGGGAAACCAGATCCGCCGTCGTAG
* * * * * *
9900550 CTTCAATCTGTTCCACTGCACCACCAGGGAAATAAGATCCACTGTTATGGCTTTAATCTTTTTAA
1 CTTCAATCTGTTCCACTGCACCGCTAGGGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTTAA
* ** *
9900615 TTACAATGTCGGGGAAATAAGATTCGCCGT--TACG
66 TTGCAATGTCGGGGAAACCAGATCCGCCGTCGTA-G
* * * * * **
9900649 ACTTCAATCTATTCTACTACACCG-TCAGAGAAGTAAGATCCATCGTTGTGGCTTCAATCTTTTT
1 -CTTCAATCTGTTCCACTGCACCGCT-AGGGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTT
*
9900713 AATTGCAATGTCGGGGAAACCAGATCCTCCGTCGTAG
64 AATTGCAATGTCGGGGAAACCAGATCCGCCGTCGTAG
* * * * *
9900750 CTTCAATTTGCTACACTGCACCGCCAGGGAAATAAGATCTGCCGTTGTGGCTTCAATCTTTTTAA
1 CTTCAATCTGTTCCACTGCACCGCTAGGGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTTAA
*
9900815 TTGCAATGTCGGGGAAACCAGATCCGCCGTCGCAG
66 TTGCAATGTCGGGGAAACCAGATCCGCCGTCGTAG
* * * * * **
9900850 CTTCAATCTGCTCCACTGTACTGCCAGAGAAATAAGATTTGCCGTTGTGGCTTCAATCTTTTTAA
1 CTTCAATCTGTTCCACTGCACCGCTAGGGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTTAA
* *
9900915 TTACAATGTTGGGGAAACCAGATCCGCCGTCGTAG
66 TTGCAATGTCGGGGAAACCAGATCCGCCGTCGTAG
* * * * *
9900950 CTTCAATTTGTTCCACTGCACCACCAGGGAAATAAGATCCACCGTTATGGCTTCAATCTTTTTAA
1 CTTCAATCTGTTCCACTGCACCGCTAGGGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTTAA
* * *
9901015 TTACAATGTCGGGGAAACCGGATCCACCGTCGTAG
66 TTGCAATGTCGGGGAAACCAGATCCGCCGTCGTAG
* * * * *
9901050 CTTCAATCTATTCCACTACACCG-TCAGGGAAATAAGATCTGCCGTTGTGACTTCAATTTTTTT
1 CTTCAATCTGTTCCACTGCACCGCT-AGGGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTT
9901113 CACAGTAATG
Statistics
Matches: 659, Mismatches: 95, Indels: 18
0.85 0.12 0.02
Matches are distributed among these distances:
98 2 0.00
99 2 0.00
100 652 0.99
101 1 0.00
102 2 0.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (100 bp):
CTTCAATCTGTTCCACTGCACCGCTAGGGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTTAA
TTGCAATGTCGGGGAAACCAGATCCGCCGTCGTAG
Found at i:9902548 original size:14 final size:14
Alignment explanation
Indices: 9902497--9902545 Score: 66
Period size: 15 Copynumber: 3.5 Consensus size: 14
9902487 TTAGCTTCTC
9902497 CATTTTT-ACTTTTT
1 CATTTTTCA-TTTTT
9902511 CCATTTTTCATTTTT
1 -CATTTTTCATTTTT
9902526 CATTTTTCA-TTTT
1 CATTTTTCATTTTT
9902539 CATTTTT
1 CATTTTT
9902546 TCACATCTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
13 11 0.33
14 9 0.27
15 12 0.36
16 1 0.03
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.69
Consensus pattern (14 bp):
CATTTTTCATTTTT
Found at i:9902561 original size:7 final size:7
Alignment explanation
Indices: 9902497--9902545 Score: 66
Period size: 7 Copynumber: 7.0 Consensus size: 7
9902487 TTAGCTTCTC
9902497 CATTTTT
1 CATTTTT
9902504 -ACTTTTT
1 CA-TTTTT
9902511 CCATTTTT
1 -CATTTTT
9902519 CATTTTT
1 CATTTTT
9902526 CATTTTT
1 CATTTTT
9902533 CA-TTTT
1 CATTTTT
9902539 CATTTTT
1 CATTTTT
9902546 TCACATCTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
6 7 0.18
7 25 0.66
8 5 0.13
9 1 0.03
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:9907284 original size:34 final size:34
Alignment explanation
Indices: 9907242--9907309 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
9907232 GAGTATAAAT
9907242 ATATATGTACATATTATAAAAATGTATAAACATA
1 ATATATGTACATATTATAAAAATGTATAAACATA
9907276 ATATATGTACATATTATAAAAATGTATAAACATA
1 ATATATGTACATATTATAAAAATGTATAAACATA
9907310 TACAAATTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (34 bp):
ATATATGTACATATTATAAAAATGTATAAACATA
Found at i:9907326 original size:18 final size:18
Alignment explanation
Indices: 9907256--9907322 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 18
9907246 ATGTACATAT
9907256 TATAAAAATGTATAAACA
1 TATAAAAATGTATAAACA
* * * * *
9907274 TA-ATATATGTACATA-T
1 TATAAAAATGTATAAACA
9907290 TATAAAAATGTATAAACA
1 TATAAAAATGTATAAACA
*
9907308 TATACAAAT-TATAAA
1 TATAAAAATGTATAAA
9907323 ACATGGGAAA
Statistics
Matches: 36, Mismatches: 11, Indels: 5
0.69 0.21 0.10
Matches are distributed among these distances:
16 2 0.06
17 24 0.67
18 10 0.28
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.33
Consensus pattern (18 bp):
TATAAAAATGTATAAACA
Found at i:9907369 original size:16 final size:16
Alignment explanation
Indices: 9907331--9907370 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
9907321 AAACATGGGA
9907331 AACATATAAATGTTAT
1 AACATATAAATGTTAT
*
9907347 AAAATATAAATG-TAT
1 AACATATAAATGTTAT
9907362 ATACATATA
1 A-ACATATA
9907371 TATAAAAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (16 bp):
AACATATAAATGTTAT
Found at i:9907495 original size:3 final size:3
Alignment explanation
Indices: 9907487--9907534 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
9907477 ATATGTAGGT
* * *
9907487 ATA ATA AT- ATA ATA ATG ATA ATA ATA ATA ATA ATT ATA ATA ATT ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9907534 A
1 A
9907535 CCACTATATT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:9907509 original size:9 final size:9
Alignment explanation
Indices: 9907486--9907534 Score: 73
Period size: 9 Copynumber: 5.6 Consensus size: 9
9907476 TATATGTAGG
9907486 TATAATAA-
1 TATAATAAT
9907494 TATAATAAT
1 TATAATAAT
*
9907503 GATAATAAT
1 TATAATAAT
*
9907512 AATAATAAT
1 TATAATAAT
9907521 TATAATAAT
1 TATAATAAT
9907530 TATAA
1 TATAA
9907535 CCACTATATT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
8 8 0.22
9 29 0.78
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (9 bp):
TATAATAAT
Found at i:9910691 original size:17 final size:18
Alignment explanation
Indices: 9910677--9910739 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 18
9910667 ATAATCTTCG
9910677 AGGATATGCAATCTTAGA
1 AGGATATGCAATCTTAGA
*
9910695 CATGATATGCAATCTTAGA
1 -AGGATATGCAATCTTAGA
* *
9910714 TATGATATGTAATCTTAGA
1 -AGGATATGCAATCTTAGA
9910733 A-GATATG
1 AGGATATG
9910740 ATTTTGTAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
17 6 0.15
18 1 0.02
19 34 0.83
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (18 bp):
AGGATATGCAATCTTAGA
Found at i:9910703 original size:19 final size:19
Alignment explanation
Indices: 9910679--9910732 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
9910669 AATCTTCGAG
9910679 GATATGCAATCTTAGACAT
1 GATATGCAATCTTAGACAT
*
9910698 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGACAT
*
9910717 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
9910733 AGATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGACAT
Found at i:9910758 original size:22 final size:22
Alignment explanation
Indices: 9910696--9910755 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 22
9910686 AATCTTAGAC
*
9910696 ATGATATGCAATCTT---AGAT
1 ATGATATGTAATCTTAGAAGAT
9910715 ATGATATGTAATCTTAGAAGAT
1 ATGATATGTAATCTTAGAAGAT
*
9910737 ATGATTTTGTAATCTTAGA
1 ATGA-TATGTAATCTTAGA
9910756 GATTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.40
22 8 0.23
23 13 0.37
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.40
Consensus pattern (22 bp):
ATGATATGTAATCTTAGAAGAT
Found at i:9910765 original size:22 final size:23
Alignment explanation
Indices: 9910721--9910765 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
9910711 AGATATGATA
*
9910721 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
9910744 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
9910766 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:9910950 original size:19 final size:21
Alignment explanation
Indices: 9910926--9910964 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
9910916 TGTTTTCTTT
*
9910926 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
9910945 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
9910965 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:9911194 original size:15 final size:15
Alignment explanation
Indices: 9911170--9911224 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
9911160 GTTTTTAGTC
9911170 TATT-TTATTAATTT
1 TATTATTATTAATTT
*
9911184 TGTTATTATTAATTT
1 TATTATTATTAATTT
9911199 TATTATTA-T-ATTAT
1 TATTATTATTAATT-T
9911213 ATATTATTATTA
1 -TATTATTATTA
9911225 TACCTACATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
13 3 0.09
14 5 0.15
15 25 0.74
16 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTATTATTAATTT
Found at i:9911201 original size:12 final size:14
Alignment explanation
Indices: 9911186--9911222 Score: 51
Period size: 12 Copynumber: 2.7 Consensus size: 14
9911176 ATTAATTTTG
9911186 TTATTATTA-ATT-
1 TTATTATTATATTA
9911198 TTATTATTATATTA
1 TTATTATTATATTA
9911212 TATATTATTAT
1 T-TATTATTAT
9911223 TATACCTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 9 0.41
13 3 0.14
14 1 0.05
15 9 0.41
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTATTATTATATTA
Found at i:9911217 original size:24 final size:24
Alignment explanation
Indices: 9911171--9911218 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
9911161 TTTTTAGTCT
* *
9911171 ATTTTATTAATTTTGTTATTATTA
1 ATTTTATTAATTATATTATTATTA
9911195 ATTTTATT-ATTATATTATATATTA
1 ATTTTATTAATTATATTAT-TATTA
9911219 TTATTATACC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (24 bp):
ATTTTATTAATTATATTATTATTA
Found at i:9917359 original size:44 final size:44
Alignment explanation
Indices: 9917309--9917628 Score: 112
Period size: 44 Copynumber: 7.3 Consensus size: 44
9917299 AGTCACCAGC
*
9917309 CTTGCCTCCCTGGGTTGCAGCGGAGAAGGCTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTAAAAATAGCAGAT
* **** * * * * * * *
9917353 CTTGCCTTCCTGCACCGACAGCGAAGCA-GATCGAAGACACCAG-C
1 CTTGCCTCCCTGGGTTG-CAGCGGAGCAGGCT-AAAAATAGCAGAT
*
9917397 CTTGCCTCCCTAGGTTGCAGCGGAGCAGGCTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTAAAAATAGCAGAT
* * **** * * * ** * * *
9917441 CTTACCTTCCTGCACCGACAACGAAGCA-GATCGAAGTCACCAG-C
1 CTTGCCTCCCTGGGTTG-CAGCGGAGCAGGCTAAAAAT-AGCAGAT
* *
9917485 CTTGCCTCCCTAGGTTGCAGTGGAGCAGGCTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTAAAAATAGCAGAT
* * ** ** * * * * * * *
9917529 ATTGCCTTCCTGCACTAACAGTGAAGCA-GATCAAAGACACCAG-C
1 CTTGCCTCCCTG-GGTTGCAGCGGAGCAGGCT-AAAAATAGCAGAT
* * * *
9917573 CTTACCTCCCTGGGTTGCAGCGAAGCAAGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTAAAAATAGCAGAT
*
9917617 CTTGCCTTCCTG
1 CTTGCCTCCCTG
9917629 CACCGACAGC
Statistics
Matches: 179, Mismatches: 85, Indels: 24
0.62 0.30 0.08
Matches are distributed among these distances:
43 45 0.25
44 89 0.50
45 45 0.25
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.20
Consensus pattern (44 bp):
CTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTAAAAATAGCAGAT
Found at i:9917413 original size:88 final size:88
Alignment explanation
Indices: 9917260--9917661 Score: 554
Period size: 88 Copynumber: 4.6 Consensus size: 88
9917250 GTGAAGATAA
* * * * * * * *
9917260 CAGATCTTGTCTTCTTGTACTGGCAGCAAAGCAGATCGAAGTCACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTT
9917325 GCAGCGGAGAAGGCTAAAAATAG
66 GCAGCGGAGAAGGCTAAAAATAG
9917348 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTT
*
9917413 GCAGCGGAGCAGGCTAAAAATAG
66 GCAGCGGAGAAGGCTAAAAATAG
* * *
9917436 CAGATCTTACCTTCCTGCACCGACAACGAAGCAGATCGAAGTCACCAGCCTTGCCTCCCTAGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTT
* *
9917501 GCAGTGGAGCAGGCTAAAAATAG
66 GCAGCGGAGAAGGCTAAAAATAG
* ** * * * *
9917524 CAGATATTGCCTTCCTGCACTAACAGTGAAGCAGATCAAAGACACCAGCCTTACCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTT
* *
9917589 GCAGCGAAGCAA-GTTAAAAATAG
66 GCAGCGGAG-AAGGCTAAAAATAG
* * *
9917612 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATTGATGACTCCAGCC
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
9917662 CTATCTCCCT
Statistics
Matches: 278, Mismatches: 35, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
88 277 1.00
89 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTT
GCAGCGGAGAAGGCTAAAAATAG
Found at i:9917729 original size:44 final size:44
Alignment explanation
Indices: 9917661--9918036 Score: 475
Period size: 44 Copynumber: 8.7 Consensus size: 44
9917651 TGACTCCAGC
*
9917661 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* * *
9917705 CCTATCTCCCTGGACAGCAATGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
*
9917749 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* **
9917793 TCTATCTCCCTAGGT-AGCAGTGGAATATATT-AA-A----GAAT
1 CCTATCTCCCT-GGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* *
9917831 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
*
9917875 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* * * * * * *
9917919 TCTATCTCCTTGGGCAGTAGTGGAATAGATTGAAGATTAT-AGGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGA-AT
*
9917963 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATCGTGAA-
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
9918006 CCTTATCTCCCTGAG-CAGCAGTGGAATAGGT
1 CC-TATCTCCCTG-GTCAGCAGTGGAATAGGT
9918037 GGAAAATAGC
Statistics
Matches: 288, Mismatches: 32, Indels: 24
0.84 0.09 0.07
Matches are distributed among these distances:
37 2 0.01
38 28 0.10
39 2 0.01
40 1 0.00
42 1 0.00
43 5 0.02
44 244 0.85
45 5 0.02
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
Found at i:9917862 original size:126 final size:129
Alignment explanation
Indices: 9917662--9918036 Score: 519
Period size: 126 Copynumber: 2.9 Consensus size: 129
9917652 GACTCCAGCC
* * *
9917662 CTATCTCCCT-GGTCAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGACAGCAAT
1 CTATCTCCCTAGG-CAGCAGTGGAATAGATTGAAGA---TGAATCCTATCTCCCTGGACAGCAGT
9917726 GGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGA
62 GGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGA
9917791 ATT
127 ATT
* *
9917794 CTATCTCCCTAGGTAGCAGTGGAATATATT-AA-A-GAATCCTATCTCCCTGGACAGCAGTGGAA
1 CTATCTCCCTAGGCAGCAGTGGAATAGATTGAAGATGAATCCTATCTCCCTGGACAGCAGTGGAA
9917856 TAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAATT
66 TAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAATT
* * * * *
9917920 CTATCTCCTTGGGCAGTAGTGGAATAGATTGAAGATTATAGGTCCTATCTCCCTGGTCAGCAGTG
1 CTATCTCCCTAGGCAGCAGTGGAATAGATTGAAGATGA-A--TCCTATCTCCCTGGACAGCAGTG
* *
9917985 GAATAGGTTGAAGATCGTGAA-CCTTATCTCCCTGAG-CAGCAGTGGAATAGGT
63 GAATAGGTTAAAGATTGTGAATCC-TATCTCCCTG-GTCAGCAGTGGAATAGGT
9918037 GGAAAATAGC
Statistics
Matches: 221, Mismatches: 13, Indels: 18
0.88 0.05 0.07
Matches are distributed among these distances:
126 117 0.53
127 2 0.01
128 1 0.00
129 1 0.00
130 2 0.01
131 4 0.02
132 91 0.41
133 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (129 bp):
CTATCTCCCTAGGCAGCAGTGGAATAGATTGAAGATGAATCCTATCTCCCTGGACAGCAGTGGAA
TAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAATT
Found at i:9917943 original size:170 final size:170
Alignment explanation
Indices: 9917661--9917989 Score: 509
Period size: 170 Copynumber: 1.9 Consensus size: 170
9917651 TGACTCCAGC
*
9917661 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGACAGCAAT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGACAGCAAT
* * *
9917726 GGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT-GAG
66 GGAATAGGTTAAAGATTGAGAATCCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTAGAG
*
9917790 AATTCTATCTCCCTAGGT-AGCAGTGGAATATATTAAAGAAT
131 -ATCCTATCTCCCT-GGTCAGCAGTGGAATATATTAAAGAAT
* *
9917831 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGACAGCAAT
* * * * *
9917896 GGAATAGGTTGAAGATTGAGAATTCTATCTCCTTGGGCAGTAGTGGAATAGATTGAAGATTATAG
66 GGAATAGGTTAAAGATTGAGAATCCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTAGAG
*
9917961 GTCCTATCTCCCTGGTCAGCAGTGGAATA
131 ATCCTATCTCCCTGGTCAGCAGTGGAATA
9917990 GGTTGAAGAT
Statistics
Matches: 144, Mismatches: 13, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
169 3 0.02
170 139 0.97
171 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (170 bp):
CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGACAGCAAT
GGAATAGGTTAAAGATTGAGAATCCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTAGAG
ATCCTATCTCCCTGGTCAGCAGTGGAATATATTAAAGAAT
Found at i:9918436 original size:44 final size:44
Alignment explanation
Indices: 9918343--9918458 Score: 137
Period size: 44 Copynumber: 2.7 Consensus size: 44
9918333 ATGGCAAATT
* *
9918343 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATC
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCGATAATC
* * * *
9918387 CTATCTCCCTGAAGTTGCAGTGAAGCGGATTAAAACC-TTGGATC
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCGAT-AATC
* *
9918431 TTATCTCTCTGAAGTTGCAGAG-AGCAGA
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGA
9918459 ACGCATTTAG
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
43 6 0.10
44 55 0.90
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCGATAATC
Found at i:9918904 original size:21 final size:21
Alignment explanation
Indices: 9918879--9918922 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
9918869 ATCTTCGAGG
9918879 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
9918900 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
9918921 AT
1 AT
9918923 GTAATCTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:9918928 original size:19 final size:19
Alignment explanation
Indices: 9918878--9918933 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 19
9918868 AATCTTCGAG
9918878 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
9918897 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
9918918 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
9918934 AGATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 15 0.44
21 19 0.56
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:9918940 original size:22 final size:23
Alignment explanation
Indices: 9918891--9918956 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
9918881 ATGCAATCTT
*
9918891 AGATATGATATATGCAATCTT---
1 AGATATGAT-TATGTAATCTTAGA
9918912 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
9918934 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
9918957 GATTTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 10 0.26
21 8 0.21
22 8 0.21
23 13 0.33
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.39
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:9918966 original size:22 final size:23
Alignment explanation
Indices: 9918922--9918966 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
9918912 AGATATGATA
*
9918922 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
9918945 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
9918967 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:9919151 original size:19 final size:21
Alignment explanation
Indices: 9919127--9919165 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
9919117 TTATTGTCTT
*
9919127 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
9919146 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
9919166 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:9919395 original size:3 final size:3
Alignment explanation
Indices: 9919387--9919425 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
9919377 ATTAATTTTG
9919387 TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
9919426 ACCTACATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:9919413 original size:17 final size:17
Alignment explanation
Indices: 9919391--9919426 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
9919381 ATTTTGTTAT
9919391 TATTATTATTATTATTA
1 TATTATTATTATTATTA
9919408 TATTATTATTATTATTA
1 TATTATTATTATTATTA
9919425 TA
1 TA
9919427 CCTACATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TATTATTATTATTATTA
Found at i:9919425 original size:20 final size:20
Alignment explanation
Indices: 9919388--9919425 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
9919378 TTAATTTTGT
9919388 TATTATTATTATTATTATTA
1 TATTATTATTATTATTATTA
9919408 TATTATTATTATTATTAT
1 TATTATTATTATTATTAT
9919426 ACCTACATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TATTATTATTATTATTATTA
Found at i:9922844 original size:35 final size:35
Alignment explanation
Indices: 9922793--9922864 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
9922783 TACTCTCTGT
* *
9922793 TTGGCGTGTTTTGGTTGGACTAGCTCTTATGAGCA
1 TTGGCATGTTTCGGTTGGACTAGCTCTTATGAGCA
*
9922828 TTGGCATGTTTCGGTTGGACTAGCTCTTGTGAGCA
1 TTGGCATGTTTCGGTTGGACTAGCTCTTATGAGCA
9922863 TT
1 TT
9922865 TGGTGTGTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.14, C:0.15, G:0.31, T:0.40
Consensus pattern (35 bp):
TTGGCATGTTTCGGTTGGACTAGCTCTTATGAGCA
Found at i:9931454 original size:38 final size:37
Alignment explanation
Indices: 9931402--9931490 Score: 92
Period size: 37 Copynumber: 2.4 Consensus size: 37
9931392 CAAGAAAGTC
* *
9931402 AAACAGTAAAGATTC-CTTAGAACACAAAAGA-GGAAGAT
1 AAACAATAATGATTCTC-TAGAA-ACAAAAGACGG-AGAT
* *
9931440 AAACAATAATGATTCTCTATAAAGAAAAGACGGAGAT
1 AAACAATAATGATTCTCTAGAAACAAAAGACGGAGAT
*
9931477 AAACAAAAATGATT
1 AAACAATAATGATT
9931491 TTCCACAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
37 24 0.55
38 19 0.43
39 1 0.02
ACGTcount: A:0.54, C:0.11, G:0.16, T:0.19
Consensus pattern (37 bp):
AAACAATAATGATTCTCTAGAAACAAAAGACGGAGAT
Found at i:9931936 original size:14 final size:13
Alignment explanation
Indices: 9931917--9931957 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
9931907 AGTTTTAAAA
9931917 TTTTTATAACTTTT
1 TTTTTATAA-TTTT
*
9931931 TTTTTATAAATTT
1 TTTTTATAATTTT
*
9931944 TGTTTATAATTTT
1 TTTTTATAATTTT
9931957 T
1 T
9931958 ATGATTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
13 15 0.62
14 9 0.38
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (13 bp):
TTTTTATAATTTT
Found at i:9932325 original size:15 final size:15
Alignment explanation
Indices: 9932305--9932333 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9932295 AGTGTTAAAA
9932305 TATAAAATTAAATAT
1 TATAAAATTAAATAT
9932320 TATAAAATTAAATA
1 TATAAAATTAAATA
9932334 ATATCAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TATAAAATTAAATAT
Found at i:9945500 original size:19 final size:20
Alignment explanation
Indices: 9945467--9945506 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
9945457 TTCAAAAACC
*
9945467 TTTTAAAAATGAAAAAGAAT
1 TTTTAAAAATGAAAAAAAAT
*
9945487 TTTTGAAAAT-AAAAAAAAT
1 TTTTAAAAATGAAAAAAAAT
9945506 T
1 T
9945507 AAATTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (20 bp):
TTTTAAAAATGAAAAAAAAT
Found at i:9946305 original size:30 final size:30
Alignment explanation
Indices: 9946271--9946335 Score: 71
Period size: 31 Copynumber: 2.1 Consensus size: 30
9946261 AAATTTTTTA
*
9946271 TAAAATTCTAAAAT-ATATCATTTT-AAATTT
1 TAAAAGTC-AAAATAATAT-ATTTTAAAATTT
9946301 TAAAAAGTCAAAATAATATATTTTCAAAATTT
1 T-AAAAGTCAAAATAATATATTTT-AAAATTT
9946333 TAA
1 TAA
9946336 TTTTTATATC
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
30 11 0.37
31 12 0.40
32 7 0.23
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.42
Consensus pattern (30 bp):
TAAAAGTCAAAATAATATATTTTAAAATTT
Found at i:9946369 original size:20 final size:18
Alignment explanation
Indices: 9946330--9946370 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
9946320 ATTTTCAAAA
9946330 TTTTAATTTTTATATCAT
1 TTTTAATTTTTATATCAT
*
9946348 TTTTCAATTTTATATATTAT
1 TTTT-AATTTT-TATATCAT
9946368 TTT
1 TTT
9946371 CACTTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 6 0.30
20 10 0.50
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTAATTTTTATATCAT
Found at i:9946371 original size:19 final size:19
Alignment explanation
Indices: 9946329--9946378 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
9946319 TATTTTCAAA
9946329 ATTTT-AATTTT-TATATC
1 ATTTTCAATTTTATATATC
*
9946346 ATTTTTCAATTTTATATATT
1 A-TTTTCAATTTTATATATC
*
9946366 ATTTTCACTTTTA
1 ATTTTCAATTTTA
9946379 AAAATTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 1 0.04
18 4 0.14
19 17 0.61
20 6 0.21
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTTTCAATTTTATATATC
Found at i:9946430 original size:24 final size:27
Alignment explanation
Indices: 9946388--9946448 Score: 83
Period size: 24 Copynumber: 2.4 Consensus size: 27
9946378 AAAAATTTAT
9946388 AATTATATATTTTAGAATTTTATAAAA
1 AATTATATATTTTAGAATTTTATAAAA
* *
9946415 AATTAT-T-TTTTA-AATTTTTTTAAA
1 AATTATATATTTTAGAATTTTATAAAA
9946439 AATTATATAT
1 AATTATATAT
9946449 ATTATATATG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 16 0.53
25 6 0.20
26 2 0.07
27 6 0.20
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (27 bp):
AATTATATATTTTAGAATTTTATAAAA
Found at i:9948935 original size:26 final size:25
Alignment explanation
Indices: 9948896--9948959 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 25
9948886 TTTGCTATTA
* *
9948896 ATTA-ATTTACTATTATTATTTTTT
1 ATTATATTTACTATTATTATATTTG
* *
9948920 ATTACTATTTATTATTGTTATATTTG
1 ATTA-TATTTACTATTATTATATTTG
9948946 ATTATATTT-CTATT
1 ATTATATTTACTATT
9948960 TACCTATATA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
24 8 0.24
25 5 0.15
26 20 0.61
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (25 bp):
ATTATATTTACTATTATTATATTTG
Found at i:9948940 original size:19 final size:19
Alignment explanation
Indices: 9948902--9948940 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
9948892 ATTAATTAAT
*
9948902 TTACTATTATTATTTTTTA
1 TTACTATTATTATTTGTTA
9948921 TTACTATTTATTA-TTGTTA
1 TTACTA-TTATTATTTGTTA
9948940 T
1 T
9948941 ATTTGATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.67
Consensus pattern (19 bp):
TTACTATTATTATTTGTTA
Found at i:9952479 original size:22 final size:21
Alignment explanation
Indices: 9952442--9952483 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
9952432 CATTGAACTG
*
9952442 TTAAGTTTTTTTAACTATTAA
1 TTAAATTTTTTTAACTATTAA
9952463 TTAAATTTTATTTAACTATTA
1 TTAAATTTT-TTTAACTATTA
9952484 GTAAGTTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (21 bp):
TTAAATTTTTTTAACTATTAA
Found at i:9953627 original size:93 final size:91
Alignment explanation
Indices: 9953513--9953713 Score: 269
Period size: 92 Copynumber: 2.2 Consensus size: 91
9953503 TGTACCAATA
* * * * *
9953513 AATTAAGCCCCTATTTTTTTTTTGCACTCATTTGGGTACTTAAACTTTCAAAATGCATTAAAGAG
1 AATTAAGCCCCTACTTTTTTTTTGCACTCAATTGAGTACTTAAACTTTCAAAATGCATCAAAAAG
*
9953578 GCCCTCAAACCTTGTTAAAAAAAAGAG
66 ACCCTCAAACCTTGTTAAAAAAAAG-G
*
9953605 CAATTAAGCCCCTAC-TTTTTTTTGCACTCAATTGAGTACTTGAACTTTCAAAATGCATCAAAAA
1 -AATTAAGCCCCTACTTTTTTTTTGCACTCAATTGAGTACTTAAACTTTCAAAATGCATCAAAAA
* * *
9953669 GACCCTCAAACTTTTTTCAAAAAAAGG
65 GACCCTCAAACCTTGTTAAAAAAAAGG
* *
9953696 AAGTAAGCCCCTGCTTTT
1 AATTAAGCCCCTACTTTT
9953714 ATTTAAAATT
Statistics
Matches: 95, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
90 12 0.13
91 4 0.04
92 66 0.69
93 13 0.14
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.33
Consensus pattern (91 bp):
AATTAAGCCCCTACTTTTTTTTTGCACTCAATTGAGTACTTAAACTTTCAAAATGCATCAAAAAG
ACCCTCAAACCTTGTTAAAAAAAAGG
Found at i:9953820 original size:19 final size:19
Alignment explanation
Indices: 9953798--9953860 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
9953788 AAAAATTTAT
9953798 TAAAAATTAGAAAATAATA
1 TAAAAATTAGAAAATAATA
* *
9953817 TAAAAATCATAAAA-AATA
1 TAAAAATTAGAAAATAATA
* **
9953835 AAAAAATT-GTAAAATTTTA
1 TAAAAATTAG-AAAATAATA
9953854 TAAAAAT
1 TAAAAAT
9953861 CGTAAAAAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
18 14 0.41
19 20 0.59
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.29
Consensus pattern (19 bp):
TAAAAATTAGAAAATAATA
Found at i:9953849 original size:37 final size:37
Alignment explanation
Indices: 9953799--9953870 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
9953789 AAAATTTATT
9953799 AAAAATTAGAAAATAATATAAAAATCATAAAAAATAA
1 AAAAATTAGAAAATAATATAAAAATCATAAAAAATAA
** *
9953836 AAAAATT-GTAAAATTTTATAAAAATCGTAAAAAAT
1 AAAAATTAG-AAAATAATATAAAAATCATAAAAAAT
9953871 TATAAAATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
36 1 0.03
37 30 0.97
ACGTcount: A:0.67, C:0.03, G:0.04, T:0.26
Consensus pattern (37 bp):
AAAAATTAGAAAATAATATAAAAATCATAAAAAATAA
Found at i:9953865 original size:19 final size:19
Alignment explanation
Indices: 9953815--9953877 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
9953805 TAGAAAATAA
*
9953815 TATAAAAATCATAAAAAA-
1 TATAAAAATCGTAAAAAAT
* * **
9953833 TAAAAAAATTGTAAAATTT
1 TATAAAAATCGTAAAAAAT
9953852 TATAAAAATCGTAAAAAAT
1 TATAAAAATCGTAAAAAAT
9953871 TATAAAA
1 TATAAAA
9953878 TATATAGAAA
Statistics
Matches: 35, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
18 13 0.37
19 22 0.63
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (19 bp):
TATAAAAATCGTAAAAAAT
Found at i:9953875 original size:56 final size:57
Alignment explanation
Indices: 9953806--9953951 Score: 140
Period size: 56 Copynumber: 2.5 Consensus size: 57
9953796 ATTAAAAATT
* *
9953806 AGAAAATAATATAAAAATCATA-AAAAATA-AAAAAATTGTAAAATTTTATAAAAATCGTA
1 AGAAAAT--TATAAAAAT-ATATAAAAATATAAAAAATTATAAAATTTTAT-AAAACCGTA
* ** *
9953865 A-AAAATTAT-AAAATATATAGAAATATAAAATTTTATAAAATTTTATAAAGCCGTA
1 AGAAAATTATAAAAATATATAAAAATATAAAAAATTATAAAATTTTATAAAACCGTA
*
9953920 AGAAAATTATACAAAATGTA-AAGAAATATAAA
1 AGAAAATTATA-AAAATATATAA-AAATATAAA
9953952 TTTCGTAAAT
Statistics
Matches: 73, Mismatches: 8, Indels: 13
0.78 0.09 0.14
Matches are distributed among these distances:
54 3 0.04
55 19 0.26
56 28 0.38
57 1 0.01
58 21 0.29
59 1 0.01
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (57 bp):
AGAAAATTATAAAAATATATAAAAATATAAAAAATTATAAAATTTTATAAAACCGTA
Found at i:9953906 original size:10 final size:10
Alignment explanation
Indices: 9953888--9953913 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
9953878 TATATAGAAA
9953888 TATAAAATTT
1 TATAAAATTT
9953898 TATAAAATTT
1 TATAAAATTT
9953908 TATAAA
1 TATAAA
9953914 GCCGTAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TATAAAATTT
Found at i:9953962 original size:56 final size:56
Alignment explanation
Indices: 9953819--9953975 Score: 142
Period size: 55 Copynumber: 2.8 Consensus size: 56
9953809 AAATAATATA
* * * *
9953819 AAAATCATAAA-AAATAAAAAAATT-GTAAAATTTTATAAAAATCGTAAAAAATTAT
1 AAAAT-ATAAAGAAATATAAAATTTCATAAAATTTTATAAAAACCGTAAAAAATTAT
* * *
9953874 AAAATATATAGAAATATAAAATTTTATAAAATTTTAT-AAAGCCGTAAGAAAATTAT
1 AAAATATAAAGAAATATAAAATTTCATAAAATTTTATAAAAACCGTAA-AAAATTAT
* *
9953930 ACAAAATGTAAAGAAATAT-AAATTTCGTAAATTATTTTTATAAAAA
1 --AAAATATAAAGAAATATAAAATTTCATAAA--A-TTTTATAAAAA
9953976 TTATCGTACC
Statistics
Matches: 82, Mismatches: 11, Indels: 12
0.78 0.10 0.11
Matches are distributed among these distances:
54 4 0.05
55 24 0.29
56 19 0.23
57 10 0.12
58 15 0.18
59 1 0.01
60 6 0.07
61 3 0.04
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (56 bp):
AAAATATAAAGAAATATAAAATTTCATAAAATTTTATAAAAACCGTAAAAAATTAT
Found at i:9954175 original size:9 final size:9
Alignment explanation
Indices: 9954161--9954212 Score: 50
Period size: 10 Copynumber: 5.3 Consensus size: 9
9954151 AAATTTCTAA
9954161 TTTTTAAAT
1 TTTTTAAAT
9954170 TTTTTAAATT
1 TTTTTAAA-T
9954180 TTTATTAGAAT
1 TTT-TTA-AAT
**
9954191 TTAATAAAT
1 TTTTTAAAT
9954200 TTTTCTAAAT
1 TTTT-TAAAT
9954210 TTT
1 TTT
9954213 ATTATTTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
9 13 0.37
10 14 0.40
11 6 0.17
12 2 0.06
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (9 bp):
TTTTTAAAT
Found at i:9954246 original size:23 final size:25
Alignment explanation
Indices: 9954199--9954255 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 25
9954189 ATTTAATAAA
* *
9954199 TTTTTCTAAATTTTATTATTTTAAT
1 TTTTTATAAATTTTATTATTCTAAT
9954224 TTTTTATAAATTTT-TT-TTCTAAT
1 TTTTTATAAATTTTATTATTCTAAT
*
9954247 TTTTAATAA
1 TTTTTATAA
9954256 GAGCAAGGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 14 0.48
24 2 0.07
25 13 0.45
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.67
Consensus pattern (25 bp):
TTTTTATAAATTTTATTATTCTAAT
Found at i:9954365 original size:87 final size:87
Alignment explanation
Indices: 9954257--9954431 Score: 262
Period size: 87 Copynumber: 2.0 Consensus size: 87
9954247 TTTTAATAAG
* * *
9954257 AGCAAGGGCTTAATTGCTTTTTTGGAA-AATTTTAAGGGTCTTTTTGATGCATTTTGAAAGTTCA
1 AGCAAGGGATTAATTGCTTTTTT-GAAGAAGTTTAAGGGCCTTTTTGATGCATTTTGAAAGTTCA
* *
9954321 AGTACCCAATTGAGTGGAAAAAA
65 AGTACCCAACTGAGTGCAAAAAA
* *
9954344 AGCAGGGGATTAATTGCTTTTTTGAAGAAGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTCAA
1 AGCAAGGGATTAATTGCTTTTTTGAAGAAGTTTAAGGGCCTTTTTGATGCATTTTGAAAGTTCAA
*
9954409 GTACTCAACTGAGTGCAAAAAA
66 GTACCCAACTGAGTGCAAAAAA
9954431 A
1 A
9954432 AAAAGGAATG
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
86 3 0.04
87 76 0.96
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (87 bp):
AGCAAGGGATTAATTGCTTTTTTGAAGAAGTTTAAGGGCCTTTTTGATGCATTTTGAAAGTTCAA
GTACCCAACTGAGTGCAAAAAA
Done.