Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 101 of 144
Found at i:23647671 original size:2 final size:2
Alignment explanation
Indices: 23647664--23647695 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
23647654 AACAAGGTGG
23647664 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23647696 GAAGGTATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23656297 original size:16 final size:17
Alignment explanation
Indices: 23656264--23656304 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
23656254 ATGCATATTC
*
23656264 ATAAAT-AATGCTTCAA
1 ATAAATAAAAGCTTCAA
*
23656280 ATATATAAAAGCTT-AA
1 ATAAATAAAAGCTTCAA
23656296 ATAAATAAA
1 ATAAATAAA
23656305 TACCTATCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.29
Consensus pattern (17 bp):
ATAAATAAAAGCTTCAA
Found at i:23658750 original size:97 final size:97
Alignment explanation
Indices: 23658575--23658768 Score: 266
Period size: 97 Copynumber: 2.0 Consensus size: 97
23658565 AACTTTGGAA
* * * *
23658575 AAGGATATTCGATTATCTCGATTTGAAGAAAAGTCGCTCCTAGTAAGTTAAGGCACAAATTTTCA
1 AAGGATATTCGATTATCTCGATTTGAAGAAAAATAGCACCTAGTAAATTAAGGCACAAATTTTCA
* *
23658640 GAATCAGAGATAAAGAAACATTGCCTCGATTT
66 AAATCAGAAATAAAGAAACATTGCCTCGATTT
* *
23658672 AAGGGTATTCGATTAT-TCCGATTTGGAGAAAAATAGCACCTAGTAAATTAAGGCACAAATTTTC
1 AAGGATATTCGATTATCT-CGATTTGAAGAAAAATAGCACCTAGTAAATTAAGGCACAAATTTTC
* *
23658736 AAAACTC-GAAATAAAGGAATATTGCCTCGATTT
65 AAAA-TCAGAAATAAAGAAACATTGCCTCGATTT
23658769 TAAAGGTTTT
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
96 1 0.01
97 82 0.96
98 2 0.02
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (97 bp):
AAGGATATTCGATTATCTCGATTTGAAGAAAAATAGCACCTAGTAAATTAAGGCACAAATTTTCA
AAATCAGAAATAAAGAAACATTGCCTCGATTT
Found at i:23659062 original size:30 final size:29
Alignment explanation
Indices: 23659028--23659112 Score: 77
Period size: 30 Copynumber: 2.9 Consensus size: 29
23659018 TTTGGACACT
23659028 TTGGGGATAAAATGGTAATTTTTAGAAAAA
1 TTGGGG-TAAAATGGTAATTTTTAGAAAAA
* * *
23659058 TTGGGGTCAAAAATGG-AGTTTTT-G-GACA
1 TTGGGGT--AAAATGGTAATTTTTAGAAAAA
*
23659086 TCCGGGGTAAAATGGTAATTTTTAGAA
1 T-TGGGGTAAAATGGTAATTTTTAGAA
23659113 GTTTTGGGAT
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
27 7 0.16
28 9 0.21
29 8 0.19
30 12 0.28
31 7 0.16
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (29 bp):
TTGGGGTAAAATGGTAATTTTTAGAAAAA
Found at i:23659166 original size:30 final size:28
Alignment explanation
Indices: 23659067--23659317 Score: 178
Period size: 29 Copynumber: 8.7 Consensus size: 28
23659057 ATTGGGGTCA
* *
23659067 AAAATGG-AGTTTTTGGACATCCG-GGGT
1 AAAATGGTAATTTTTGGA-ATTCGAGGGT
* * *
23659094 AAAATGGTAATTTTTAGAAGTTTTG-GGAT
1 AAAATGGTAATTTTTGGAA--TTCGAGGGT
*
23659123 CAAAAATGG-AATTTTTGGATATTCAAGGGTT
1 --AAAATGGTAATTTTTGGA-ATTCGAGGG-T
*
23659154 AAAATGGTAATTTTTGGAAGTTC-AAGGT
1 AAAATGGTAATTTTTGGAA-TTCGAGGGT
*
23659182 CAAAAATGG-AATTTTTGGCAGTTCGAGGGT
1 --AAAATGGTAATTTTTGG-AATTCGAGGGT
*
23659212 AAAATGGTAATTTTTGGAAAAATCGA-GGT
1 AAAATGGTAATTTTTGG--AATTCGAGGGT
23659241 CAAAAATGG-AATTTTTGGCAATTCGAGGGT
1 --AAAATGGTAATTTTTGG-AATTCGAGGGT
*
23659271 AAAATGGTAA-ATTTGGAAGTTCGAGGGT
1 AAAATGGTAATTTTTGGAA-TTCGAGGGT
* *
23659299 GAAATGGTAAATTTTGGAA
1 AAAATGGTAATTTTTGGAA
23659318 AAATCTGGGT
Statistics
Matches: 182, Mismatches: 20, Indels: 42
0.75 0.08 0.17
Matches are distributed among these distances:
27 10 0.05
28 46 0.25
29 57 0.31
30 53 0.29
31 16 0.09
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.33
Consensus pattern (28 bp):
AAAATGGTAATTTTTGGAATTCGAGGGT
Found at i:23659286 original size:58 final size:59
Alignment explanation
Indices: 23659018--23659288 Score: 286
Period size: 59 Copynumber: 4.6 Consensus size: 59
23659008 GAACGGTAAA
* * * * *
23659018 TTTGGACACTTTG-GGGATAAAATGGTAATTTTTAGAAAAATTGGGGTCAAAAATGGAGTT
1 TTTGGACA-TTCGAGGG-TAAAATGGTAATTTTTGGAAAAATCGAGGTCAAAAATGGAATT
* * *** *
23659078 TTTGGACATCCG-GGGTAAAATGGTAATTTTTAGAAGTTTTG-GGATCAAAAATGGAATT
1 TTTGGACATTCGAGGGTAAAATGGTAATTTTTGGAAAAATCGAGG-TCAAAAATGGAATT
* * ** *
23659136 TTTGGATATTCAAGGGTTAAAATGGTAATTTTTGG-AAGTTCAAGGTCAAAAATGGAATT
1 TTTGGACATTCGAGGG-TAAAATGGTAATTTTTGGAAAAATCGAGGTCAAAAATGGAATT
23659195 TTTGG-CAGTTCGAGGGTAAAATGGTAATTTTTGGAAAAATCGAGGTCAAAAATGGAATT
1 TTTGGACA-TTCGAGGGTAAAATGGTAATTTTTGGAAAAATCGAGGTCAAAAATGGAATT
*
23659254 TTTGG-CAATTCGAGGGTAAAATGGTAA-ATTTGGAA
1 TTTGGAC-ATTCGAGGGTAAAATGGTAATTTTTGGAA
23659289 GTTCGAGGGT
Statistics
Matches: 184, Mismatches: 20, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
57 2 0.01
58 71 0.39
59 83 0.45
60 28 0.15
ACGTcount: A:0.35, C:0.06, G:0.26, T:0.33
Consensus pattern (59 bp):
TTTGGACATTCGAGGGTAAAATGGTAATTTTTGGAAAAATCGAGGTCAAAAATGGAATT
Found at i:23659358 original size:87 final size:87
Alignment explanation
Indices: 23659195--23659405 Score: 220
Period size: 87 Copynumber: 2.4 Consensus size: 87
23659185 AAATGGAATT
* * * * *
23659195 TTTGGCAGTTCGAGGGTAAAATGGTAATTTTTGGAAAAATCGAGGTCAAAAATGGAATTTTTGGC
1 TTTGGAAGTTCGAGGGTAAAATGGTAAATTTTGGAAAAATCGAGGTCAAAAATGAAAATTTTGGA
*
23659260 AATTCGAGGGTAAAATGGTAAA
66 AATTAGAGGGTAAAATGGTAAA
* *
23659282 TTTGGAAGTTCGAGGGTGAAATGGTAAATTTTGGAAAAATCTG-GGTCAAAAAT-AAAATTTTGT
1 TTTGGAAGTTCGAGGGTAAAATGGTAAATTTTGGAAAAATC-GAGGTCAAAAATGAAAATTTTGG
*
23659345 AAAGTTTAG-GGGTAAAAT-GTAATT
65 AAA--TTAGAGGGTAAAATGGTAA-A
*
23659369 TTTGGAAACTTC-AGGGTCAAAAATGG--AATTTTGGAAA
1 TTTGG-AAGTTCGAGGGT--AAAATGGTAAATTTTGGAAA
23659406 GTTTAGGGTA
Statistics
Matches: 106, Mismatches: 11, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
86 13 0.12
87 78 0.74
88 9 0.08
89 6 0.06
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (87 bp):
TTTGGAAGTTCGAGGGTAAAATGGTAAATTTTGGAAAAATCGAGGTCAAAAATGAAAATTTTGGA
AATTAGAGGGTAAAATGGTAAA
Found at i:23659361 original size:28 final size:28
Alignment explanation
Indices: 23659307--23659471 Score: 111
Period size: 29 Copynumber: 5.7 Consensus size: 28
23659297 GTGAAATGGT
* *
23659307 AAATTTTGGAAAAATCT-GGGTCAAAAATA
1 AAATTTTGG-AAAGTTTAGGGTC-AAAATA
* *
23659336 AAATTTTGTAAAGTTTAGGGGT-AAAATGT
1 AAATTTTGGAAAGTTTA-GGGTCAAAAT-A
* * * *
23659365 AATTTTTGGAAACTTCAGGGTCAAAAATG
1 AAATTTTGGAAAGTTTAGGGTC-AAAATA
*
23659394 GAATTTTGGAAAGTTTAGGGT-AGAAATA
1 AAATTTTGGAAAGTTTAGGGTCA-AAATA
* * *
23659422 TAATTTTTGAAAAGTTCAGGGTCAAAATA
1 -AAATTTTGGAAAGTTTAGGGTCAAAATA
* *
23659451 TAATTTTTGAACAGTTTAGGG
1 AAATTTTGGAA-AGTTTAGGG
23659472 ACCTCCAAGG
Statistics
Matches: 104, Mismatches: 23, Indels: 18
0.72 0.16 0.12
Matches are distributed among these distances:
27 1 0.01
28 25 0.24
29 68 0.65
30 10 0.10
ACGTcount: A:0.39, C:0.05, G:0.22, T:0.34
Consensus pattern (28 bp):
AAATTTTGGAAAGTTTAGGGTCAAAATA
Found at i:23659387 original size:58 final size:58
Alignment explanation
Indices: 23659295--23659471 Score: 191
Period size: 58 Copynumber: 3.0 Consensus size: 58
23659285 GGAAGTTCGA
* * * *
23659295 GGGTGAAATGGTAAATTTTGGAAAAATCTGGGTCAAAAATAAAATTTTGTAAAGTTTAG
1 GGGTAAAAT-GTAATTTTTGGAAAATTCAGGGTCAAAAATAAAATTTTGTAAAGTTTAG
* ** *
23659354 GGGTAAAATGTAATTTTTGGAAACTTCAGGGTCAAAAATGGAATTTTGGAAAGTTTA-
1 GGGTAAAATGTAATTTTTGGAAAATTCAGGGTCAAAAATAAAATTTTGTAAAGTTTAG
* *
23659411 GGGTAGAAATATAATTTTT-GAAAAGTTCAGGGTC-AAAATATAATTTT-TGAACAGTTTAG
1 GGGTA-AAATGTAATTTTTGGAAAA-TTCAGGGTCAAAAATAAAATTTTGT-AA-AGTTTAG
23659470 GG
1 GG
23659472 ACCTCCAAGG
Statistics
Matches: 100, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
57 22 0.22
58 68 0.68
59 10 0.10
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.33
Consensus pattern (58 bp):
GGGTAAAATGTAATTTTTGGAAAATTCAGGGTCAAAAATAAAATTTTGTAAAGTTTAG
Found at i:23662781 original size:2 final size:2
Alignment explanation
Indices: 23662774--23662807 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
23662764 CATAAAAACC
23662774 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23662808 TCTAATTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23664066 original size:59 final size:57
Alignment explanation
Indices: 23664005--23664219 Score: 148
Period size: 59 Copynumber: 3.7 Consensus size: 57
23663995 AAAATGGTAT
* * *
23664005 TTTTAGACTCTCGAGGGCAAAATGGTAATTTTGGGAAAATTTGGGGTTAGAAATGACA
1 TTTTAGACTATCGAGGGCAAAACGGTAATTTT-AGAAAATTTGGGGTTAGAAATGACA
* * * * * * * * * * *
23664063 TTTTA-AATGTTCGAGGGTAAAACGGTAATTTTCA-AAAGAATCGAGATAAAAACAAGACT
1 TTTTAGACT-ATCGAGGGCAAAACGGTAATTTT-AGAAA-ATTTGGGGTTAGAA-ATGACA
* * *
23664122 TTTTGGA-TGTCCGAGGGCAAAATGGTAATTTTAAGACAAATTTGGGGTTAGAAATGACA
1 TTTTAGACTAT-CGAGGGCAAAACGGTAATTTT-AGA-AAATTTGGGGTTAGAAATGACA
* * *
23664181 TTTTAGACAATCGAGGGTAAAACGATAATTTTTAGAAAA
1 TTTTAGACTATCGAGGGCAAAACGGTAA-TTTTAGAAAA
23664220 ATCGGGATCA
Statistics
Matches: 115, Mismatches: 33, Indels: 18
0.69 0.20 0.11
Matches are distributed among these distances:
57 5 0.04
58 37 0.32
59 56 0.49
60 15 0.13
61 2 0.02
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.30
Consensus pattern (57 bp):
TTTTAGACTATCGAGGGCAAAACGGTAATTTTAGAAAATTTGGGGTTAGAAATGACA
Found at i:23664184 original size:118 final size:117
Alignment explanation
Indices: 23664003--23664270 Score: 328
Period size: 118 Copynumber: 2.3 Consensus size: 117
23663993 GTAAAATGGT
* **
23664003 ATTTTTAGAC-TCTCGAGGGCAAAATGGTAATTTTGGGAAAATTTGGGGTTAGAAATGACATTTT
1 ATTTTTGGACATC-CGAGGGCAAAATGGTAATTTTAAGAAAATTTGGGGTTAGAAATGACATTTT
*** *
23664067 AAATGTTCGAGGGTAAAACGGTAATTTTCA-AAAGAATCGAGAT-AAAAACAAG
65 AAACAATCGAGGGTAAAACGATAATTTTCAGAAA-AATCGAGATCAAAAACAAG
**
23664119 ACTTTTTGGATGTCCGAGGGCAAAATGGTAATTTTAAGACAAATTTGGGGTTAGAAATGACATTT
1 A-TTTTTGGACATCCGAGGGCAAAATGGTAATTTTAAGA-AAATTTGGGGTTAGAAATGACATTT
* * * **
23664184 TAGACAATCGAGGGTAAAACGATAATTTTTAGAAAAATCGGGATCAAAAATGAG
64 TAAACAATCGAGGGTAAAACGATAATTTTCAGAAAAATCGAGATCAAAAACAAG
* *
23664238 ATTTTTGGACATCCG-GGGTAAAATGGTATTTTT
1 ATTTTTGGACATCCGAGGGCAAAATGGTAATTTT
23664271 GGAGTTTTGG
Statistics
Matches: 130, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
116 1 0.01
117 46 0.35
118 72 0.55
119 11 0.08
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.31
Consensus pattern (117 bp):
ATTTTTGGACATCCGAGGGCAAAATGGTAATTTTAAGAAAATTTGGGGTTAGAAATGACATTTTA
AACAATCGAGGGTAAAACGATAATTTTCAGAAAAATCGAGATCAAAAACAAG
Found at i:23664478 original size:30 final size:29
Alignment explanation
Indices: 23664257--23664475 Score: 212
Period size: 29 Copynumber: 7.5 Consensus size: 29
23664247 CATCCGGGGT
*
23664257 AAAATGGT-ATTTTTGG-AGTTTTGGGGTCA
1 AAAAT-GTAATTTTTGGAAG-TTTCGGGTCA
* * *
23664286 AAAATGGAATTTTTGGAAGTTTGGGGTGA
1 AAAATGTAATTTTTGGAAGTTTCGGGTCA
* * *
23664315 AAAATGAAATTTTTGGAAGTTTGGGGGCA
1 AAAATGTAATTTTTGGAAGTTTCGGGTCA
* **
23664344 AAAATGTAATTGTTATAAGTTTCGAGGTCA
1 AAAATGTAATTTTTGGAAGTTTCG-GGTCA
*
23664374 AAAATGT-ATTTTTGGAAGTTTGAGGGT-A
1 AAAATGTAATTTTTGGAAGTTT-CGGGTCA
* *
23664402 AAAACGTAATTTTGGGAAGTTTCGGAGTCA
1 AAAATGTAATTTTTGGAAGTTTCGG-GTCA
* * *
23664432 AAAATGGAATTTTTAGAAGTTTCAGGGTTA
1 AAAATGTAATTTTTGGAAGTTTC-GGGTCA
23664462 AAAATGTAATTTTT
1 AAAATGTAATTTTT
23664476 AGATAATTTA
Statistics
Matches: 158, Mismatches: 24, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
28 10 0.06
29 96 0.61
30 50 0.32
31 2 0.01
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.37
Consensus pattern (29 bp):
AAAATGTAATTTTTGGAAGTTTCGGGTCA
Found at i:23666534 original size:6 final size:6
Alignment explanation
Indices: 23666523--23666578 Score: 57
Period size: 6 Copynumber: 9.8 Consensus size: 6
23666513 TACAATGATA
*
23666523 TTAAAT TTAAA- TTAAAT TTAAAT TTAAA- ATAAAT TT-AAT TTCAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TT-AAAT
*
23666568 GTAAAT TTAAA
1 TTAAAT TTAAA
23666579 ATGGTTTGGG
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
5 17 0.41
6 22 0.54
7 2 0.05
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (6 bp):
TTAAAT
Found at i:23666538 original size:11 final size:11
Alignment explanation
Indices: 23666522--23666578 Score: 62
Period size: 11 Copynumber: 5.1 Consensus size: 11
23666512 TTACAATGAT
23666522 ATTAAATTTAA
1 ATTAAATTTAA
23666533 ATTAAATTTAA
1 ATTAAATTTAA
*
23666544 ATTTAAA-ATAA
1 A-TTAAATTTAA
*
23666555 ATTTAATTTCAA
1 ATTAAATTT-AA
*
23666567 AGTAAATTTAA
1 ATTAAATTTAA
23666578 A
1 A
23666579 ATGGTTTGGG
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
10 4 0.11
11 20 0.53
12 14 0.37
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:23666543 original size:17 final size:17
Alignment explanation
Indices: 23666523--23666578 Score: 78
Period size: 17 Copynumber: 3.3 Consensus size: 17
23666513 TACAATGATA
*
23666523 TTAAATTTAAATTAAAT
1 TTAAATTTAAAATAAAT
23666540 TTAAATTTAAAATAAAT
1 TTAAATTTAAAATAAAT
*
23666557 TT-AATTTCAAAGTAAAT
1 TTAAATTT-AAAATAAAT
23666574 TTAAA
1 TTAAA
23666579 ATGGTTTGGG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
16 5 0.14
17 28 0.80
18 2 0.06
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
TTAAATTTAAAATAAAT
Found at i:23666555 original size:28 final size:28
Alignment explanation
Indices: 23666524--23666580 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
23666514 ACAATGATAT
*
23666524 TAAATTTAAATT-AAATTTAAATTTAAAA
1 TAAATTTAAATTCAAA-GTAAATTTAAAA
*
23666552 TAAATTTAATTTCAAAGTAAATTTAAAA
1 TAAATTTAAATTCAAAGTAAATTTAAAA
23666580 T
1 T
23666581 GGTTTGGGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 23 0.88
29 3 0.12
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (28 bp):
TAAATTTAAATTCAAAGTAAATTTAAAA
Found at i:23666985 original size:92 final size:92
Alignment explanation
Indices: 23666832--23667094 Score: 481
Period size: 92 Copynumber: 2.8 Consensus size: 92
23666822 TGATGTCGAG
*
23666832 GCTTCATCTTGCTCTTACTACAACTTTAGAGAGAGATAAAGACTTGCTATCCAACTTTACTACAA
1 GCTTCATCTTGCTCTTACTACAAC-TT-CAGAGAGATAAAGACTTGCTATCCAACTTTACTACAA
23666897 CTTCAAGAGGATAGGAATTGATGTTTGAA
64 CTTCAAGAGGATAGGAATTGATGTTTGAA
23666926 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
23666991 TCAAGAGGATAGGAATTGATGTTTGAA
66 TCAAGAGGATAGGAATTGATGTTTGAA
* *
23667018 ACTTCATCTTACTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
23667083 TCAAGAGGATAG
66 TCAAGAGGATAG
23667095 CTCTTACTAC
Statistics
Matches: 166, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
92 140 0.84
93 2 0.01
94 24 0.14
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.31
Consensus pattern (92 bp):
GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
TCAAGAGGATAGGAATTGATGTTTGAA
Found at i:23667103 original size:66 final size:66
Alignment explanation
Indices: 23667029--23667160 Score: 264
Period size: 66 Copynumber: 2.0 Consensus size: 66
23667019 CTTCATCTTA
23667029 CTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGATA
1 CTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGATA
23667094 G
66 G
23667095 CTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGATA
1 CTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGATA
23667160 G
66 G
23667161 GAATTGATGT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (66 bp):
CTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGATA
G
Found at i:23667224 original size:158 final size:158
Alignment explanation
Indices: 23666936--23667426 Score: 766
Period size: 158 Copynumber: 3.0 Consensus size: 158
23666926 GCTTCATCTT
23666936 GCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGAT
1 GCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGAT
*
23667001 AGGAATTGATGTTTGAAACTTCATCTTACTCTTACTACAACTTCAGAGAGATAAAGACTTGCTAT
66 AGGAATTGATGTTTGAAACTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTAT
23667066 CCAACTTTACTACAACTTCAAGAGGATA
131 CCAACTTTACTACAACTTCAAGAGGATA
23667094 GCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGAT
1 GCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGAT
23667159 AGGAATTGATGTTTGAAACTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTAT
66 AGGAATTGATGTTTGAAACTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTAT
*
23667224 CCATCTTTACTACAACTTCAAGAGGATAGGAA
131 CCAACTTTACTACAACTTCAAGAGGAT----A
* * ** *
23667256 TTGATGTTTGAAGCTTCATCTTGCTCTTCAGAGAGATAAAGACTTGCTACCCAACTTTACTACAA
1 --GCT-CTT--A-C-T-A-C---AACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAA
23667321 CTTCAAGAGGATAGGAATTGATGTTTGAAACTTCATCTTGCTCTTACTACAACTTCAGAGAGATA
54 CTTCAAGAGGATAGGAATTGATGTTTGAAACTTCATCTTGCTCTTACTACAACTTCAGAGAGATA
*
23667386 AAGACTTGCTATCCAACTTTACTACAACTTAAAGAGGATA
119 AAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGATA
23667426 G
1 G
23667427 GAAATGATTT
Statistics
Matches: 308, Mismatches: 9, Indels: 22
0.91 0.03 0.06
Matches are distributed among these distances:
158 155 0.50
162 1 0.00
164 2 0.01
165 2 0.01
167 1 0.00
168 2 0.01
169 1 0.00
170 2 0.01
171 1 0.00
174 141 0.46
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.30
Consensus pattern (158 bp):
GCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGAT
AGGAATTGATGTTTGAAACTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTAT
CCAACTTTACTACAACTTCAAGAGGATA
Found at i:23667251 original size:92 final size:92
Alignment explanation
Indices: 23667094--23667664 Score: 936
Period size: 92 Copynumber: 6.4 Consensus size: 92
23667084 CAAGAGGATA
23667094 GCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGAT
1 GCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGAT
23667159 AGGAATTGATGTTTGAAACTTCATCTT
66 AGGAATTGATGTTTGAAACTTCATCTT
*
23667186 GCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCATCTTTACTACAACTTCAAGAGGAT
1 GCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGAT
*
23667251 AGGAATTGATGTTTGAAGCTTCATCTT
66 AGGAATTGATGTTTGAAACTTCATCTT
*
23667278 G------CT----CTTCAGAGAGATAAAGACTTGCTACCCAACTTTACTACAACTTCAAGAGGAT
1 GCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGAT
23667333 AGGAATTGATGTTTGAAACTTCATCTT
66 AGGAATTGATGTTTGAAACTTCATCTT
*
23667360 GCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTAAAGAGGAT
1 GCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGAT
* *
23667425 AGGAAATGATTTTTGAAACTTCATCTT
66 AGGAATTGATGTTTGAAACTTCATCTT
*
23667452 GCTCTTACTACAACTTTAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGAT
1 GCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGAT
*
23667517 AGGAATTGTTGTTTGAAACTTCATCTT
66 AGGAATTGATGTTTGAAACTTCATCTT
*
23667544 GCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCGAGAGGAT
1 GCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGAT
* *
23667609 AGGAAATGATGTTTG-AA---CATTTT
66 AGGAATTGATGTTTGAAACTTCATCTT
*
23667632 ACTCTTACTACAACTTCAGAGAGATAAAGACTT
1 GCTCTTACTACAACTTCAGAGAGATAAAGACTT
23667665 TTGTCTTTTG
Statistics
Matches: 449, Mismatches: 20, Indels: 24
0.91 0.04 0.05
Matches are distributed among these distances:
82 77 0.17
86 2 0.00
88 39 0.09
91 2 0.00
92 329 0.73
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.32
Consensus pattern (92 bp):
GCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGAT
AGGAATTGATGTTTGAAACTTCATCTT
Found at i:23667374 original size:52 final size:50
Alignment explanation
Indices: 23667312--23667566 Score: 176
Period size: 52 Copynumber: 5.4 Consensus size: 50
23667302 CTACCCAACT
23667312 TTACTACAACTTCAAGAGGATAGGAATTGATGTTTGAAACTTCATCTTGCTC
1 TTACTACAACTTCAAGAGGATAGGAA-TGAT-TTTGAAACTTCATCTTGCTC
* ***
23667364 TTACTACAACTTC-AGAGAGATA--AA-GA-CTTG---C-T-ATCCAACT-
1 TTACTACAACTTCAAGAG-GATAGGAATGATTTTGAAACTTCATCTTGCTC
*
23667404 TTACTACAACTTAAAGAGGATAGGAAATGATTTTTGAAACTTCATCTTGCTC
1 TTACTACAACTTCAAGAGGATAGG-AATGA-TTTTGAAACTTCATCTTGCTC
* * ***
23667456 TTACTACAACTT-TAGAGAGATA--AA-GA-CTTG---C-T-ATCCAACT-
1 TTACTACAACTTCAAGAG-GATAGGAATGATTTTGAAACTTCATCTTGCTC
*
23667496 TTACTACAACTTCAAGAGGATAGGAATTGTTGTTTGAAACTTCATCTTGCTC
1 TTACTACAACTTCAAGAGGATAGGAA-TGAT-TTTGAAACTTCATCTTGCTC
23667548 TTACTACAACTTCAGAGAG
1 TTACTACAACTTCA-AGAG
23667567 ATAAAGACTT
Statistics
Matches: 154, Mismatches: 20, Indels: 57
0.67 0.09 0.25
Matches are distributed among these distances:
40 32 0.21
41 18 0.12
42 4 0.03
43 4 0.03
44 3 0.02
46 12 0.08
48 4 0.03
49 4 0.03
50 4 0.03
51 18 0.12
52 47 0.31
53 4 0.03
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (50 bp):
TTACTACAACTTCAAGAGGATAGGAATGATTTTGAAACTTCATCTTGCTC
Found at i:23667594 original size:184 final size:180
Alignment explanation
Indices: 23667095--23667664 Score: 920
Period size: 174 Copynumber: 3.2 Consensus size: 180
23667085 AAGAGGATAG
*
23667095 CTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGATA
1 CTCTTACTACAACTTCAGAGAGATAAAGACTTGCTACCCAACTTTACTACAACTTCAAGAGGATA
23667160 GGAATTGATGTTTGAAACTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATC
66 GGAATTGATGTTTGAAACTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATC
* * * *
23667225 CATCTTTACTACAACTTCAAGAGGATAGGAATTGATGTTTG-A-AGCTT-
131 CAACTTTACTACAACTTAAAGAGGATAGGAAATGATGTTTGAACATCTTA
*
23667272 CATCTTGCT----CTTCAGAGAGATAAAGACTTGCTACCCAACTTTACTACAACTTCAAGAGGAT
1 C-TCTTACTACAACTTCAGAGAGATAAAGACTTGCTACCCAACTTTACTACAACTTCAAGAGGAT
23667333 AGGAATTGATGTTTGAAACTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTAT
65 AGGAATTGATGTTTGAAACTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTAT
* *
23667398 CCAACTTTACTACAACTTAAAGAGGATAGGAAATGATTTTTGAAACTTCATCTTG
130 CCAACTTTACTACAACTTAAAGAGGATAGGAAATGATGTTTG-AA---CATCTTA
* *
23667453 CTCTTACTACAACTTTAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGATA
1 CTCTTACTACAACTTCAGAGAGATAAAGACTTGCTACCCAACTTTACTACAACTTCAAGAGGATA
*
23667518 GGAATTGTTGTTTGAAACTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATC
66 GGAATTGATGTTTGAAACTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATC
** *
23667583 CAACTTTACTACAACTTCGAGAGGATAGGAAATGATGTTTGAACATTTTA
131 CAACTTTACTACAACTTAAAGAGGATAGGAAATGATGTTTGAACATCTTA
23667633 CTCTTACTACAACTTCAGAGAGATAAAGACTT
1 CTCTTACTACAACTTCAGAGAGATAAAGACTT
23667665 TTGTCTTTTG
Statistics
Matches: 364, Mismatches: 17, Indels: 21
0.91 0.04 0.05
Matches are distributed among these distances:
174 154 0.42
176 1 0.00
177 1 0.00
178 6 0.02
180 46 0.13
181 1 0.00
183 2 0.01
184 153 0.42
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (180 bp):
CTCTTACTACAACTTCAGAGAGATAAAGACTTGCTACCCAACTTTACTACAACTTCAAGAGGATA
GGAATTGATGTTTGAAACTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATC
CAACTTTACTACAACTTAAAGAGGATAGGAAATGATGTTTGAACATCTTA
Found at i:23667890 original size:50 final size:50
Alignment explanation
Indices: 23667685--23667890 Score: 129
Period size: 50 Copynumber: 4.1 Consensus size: 50
23667675 TCTTTTTGCG
* * **
23667685 GTACTGGATCCACCGTCGCGGTCTTAGATATTTCCCGTCGTGTC-TTC-TGA
1 GTACTAGATCCACCGTCGCGGTCTTAGATCTTTCCC-TTATGTCTTTCGT-A
* * * * * * * *
23667735 GGTAC-ACGGTCCACCGTTG-TGACTTAGACCTTTCCCTTTTGTCTTTTTGCA
1 -GTACTA-GATCCACCGTCGCGGTCTTAGATCTTTCCCTTATGTC-TTTCGTA
* * *
23667786 GTACTAGATCCGCCGTTGTGGTCTTAGATCTTT-CCTGTCATGT-TTTCGTA
1 GTACTAGATCCACCGTCGCGGTCTTAGATCTTTCCCT-T-ATGTCTTTCGTA
* * *
23667836 GTACTAGATCCATCGTCGCGG-CTTAGATCTTTCCCTTGTGTCTTTGCGTG
1 GTACTAGATCCACCGTCGCGGTCTTAGATCTTTCCCTTATGTCTTT-CGTA
23667886 GTACT
1 GTACT
23667891 GAGACCTGTA
Statistics
Matches: 119, Mismatches: 25, Indels: 23
0.71 0.15 0.14
Matches are distributed among these distances:
48 3 0.03
49 20 0.17
50 63 0.53
51 30 0.25
52 3 0.03
ACGTcount: A:0.14, C:0.26, G:0.22, T:0.38
Consensus pattern (50 bp):
GTACTAGATCCACCGTCGCGGTCTTAGATCTTTCCCTTATGTCTTTCGTA
Found at i:23669957 original size:17 final size:16
Alignment explanation
Indices: 23669935--23669996 Score: 61
Period size: 17 Copynumber: 3.7 Consensus size: 16
23669925 ATATTAAATA
23669935 TAAATTAAATTCATATT
1 TAAATTAAATTCA-ATT
*
23669952 TAAATTAAAATTGAATT
1 TAAATT-AAATTCAATT
* *
23669969 TAAAATAAATTTAATT
1 TAAATTAAATTCAATT
*
23669985 TCAAAGTAAATT
1 T-AAATTAAATT
23669997 TAAAATGGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
16 10 0.26
17 23 0.59
18 6 0.15
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (16 bp):
TAAATTAAATTCAATT
Found at i:23669980 original size:28 final size:28
Alignment explanation
Indices: 23669949--23670002 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
23669939 TTAAATTCAT
* *
23669949 ATTTAAATTAAAATTGAATTTAAAATAA
1 ATTTAAATTAAAAGTAAATTTAAAATAA
* *
23669977 ATTTAATTTCAAAGTAAATTTAAAAT
1 ATTTAAATTAAAAGTAAATTTAAAAT
23670003 GGTTTGGGCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.41
Consensus pattern (28 bp):
ATTTAAATTAAAAGTAAATTTAAAATAA
Found at i:23671154 original size:21 final size:21
Alignment explanation
Indices: 23671130--23671214 Score: 75
Period size: 21 Copynumber: 3.9 Consensus size: 21
23671120 TAATTTATTT
23671130 TATTTTTAATTTAATATTTGA
1 TATTTTTAATTTAATATTTGA
** *
23671151 TA-TTTTAGATATTTTTA-TTAA
1 TATTTTTA-AT-TTAATATTTGA
23671172 TATTTAATTTAATTTAATATTTGA
1 TA-TT--TTTAATTTAATATTTGA
*
23671196 TATTTTTATTTTAATATTT
1 TATTTTTAATTTAATATTT
23671215 ATTGTTTAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
20 5 0.10
21 23 0.46
22 4 0.08
23 7 0.14
24 7 0.14
25 4 0.08
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.64
Consensus pattern (21 bp):
TATTTTTAATTTAATATTTGA
Found at i:23671169 original size:15 final size:14
Alignment explanation
Indices: 23671130--23671214 Score: 56
Period size: 14 Copynumber: 6.4 Consensus size: 14
23671120 TAATTTATTT
*
23671130 TATTTTTAATTTAA
1 TATTTTTATTTTAA
*
23671144 TATTTGATATTTTAGA
1 TATTT-TTATTTTA-A
23671160 TATTTTTA--TTAA
1 TATTTTTATTTTAA
*
23671172 TA--TTTAATTTAA
1 TATTTTTATTTTAA
** *
23671184 T-TTAATA-TTTGA
1 TATTTTTATTTTAA
23671196 TATTTTTATTTTAA
1 TATTTTTATTTTAA
23671210 TATTT
1 TATTT
23671215 ATTGTTTAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 16
0.68 0.11 0.20
Matches are distributed among these distances:
10 4 0.07
12 13 0.24
13 9 0.17
14 14 0.26
15 8 0.15
16 6 0.11
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.64
Consensus pattern (14 bp):
TATTTTTATTTTAA
Found at i:23674462 original size:2 final size:2
Alignment explanation
Indices: 23674455--23674479 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23674445 GCATGTAATT
23674455 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
23674480 TCTAATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23679295 original size:33 final size:31
Alignment explanation
Indices: 23679258--23679319 Score: 106
Period size: 33 Copynumber: 1.9 Consensus size: 31
23679248 TTATTTTATT
23679258 TTTAATTTAATATTTGATATTTTAGATATTTAA
1 TTTAATTTAATATTTGATA-TTT-GATATTTAA
23679291 TTTAATTTAATATTTGATATTTGATATTT
1 TTTAATTTAATATTTGATATTTGATATTT
23679320 TTATTTTAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 7 0.24
32 3 0.10
33 19 0.66
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (31 bp):
TTTAATTTAATATTTGATATTTGATATTTAA
Found at i:23680568 original size:28 final size:28
Alignment explanation
Indices: 23680528--23680584 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
23680518 ATGAGAACGT
*
23680528 GTTAATTAATACAGAGGGATCGGTTGTG
1 GTTAATTAATACAGAGGGATCGATTGTG
23680556 GTTAATTAATACAGAGGGATCGATTGTG
1 GTTAATTAATACAGAGGGATCGATTGTG
23680584 G
1 G
23680585 AGAGAGGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.30, C:0.07, G:0.32, T:0.32
Consensus pattern (28 bp):
GTTAATTAATACAGAGGGATCGATTGTG
Found at i:23689418 original size:2 final size:2
Alignment explanation
Indices: 23689411--23689452 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
23689401 AACAAGGTGG
23689411 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23689453 GAAGGTATTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23695996 original size:24 final size:24
Alignment explanation
Indices: 23695964--23696017 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
23695954 CGTACAAAAT
23695964 TTCTGTTAATCCTTGCAAGCTTTG
1 TTCTGTTAATCCTTGCAAGCTTTG
23695988 TTCTGTTAATCCTTGCAAGCTTTG
1 TTCTGTTAATCCTTGCAAGCTTTG
23696012 TTCTGT
1 TTCTGT
23696018 AAGGATCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.15, C:0.20, G:0.17, T:0.48
Consensus pattern (24 bp):
TTCTGTTAATCCTTGCAAGCTTTG
Found at i:23700020 original size:16 final size:17
Alignment explanation
Indices: 23699987--23700027 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
23699977 ATGCATATTC
*
23699987 ATATAT-AATGCTTCAA
1 ATATATAAAAGCTTCAA
23700003 ATATATAAAAGCTT-AA
1 ATATATAAAAGCTTCAA
*
23700019 ATAAATAAA
1 ATATATAAA
23700028 TACCTATCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.32
Consensus pattern (17 bp):
ATATATAAAAGCTTCAA
Found at i:23706217 original size:18 final size:18
Alignment explanation
Indices: 23706194--23706245 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
23706184 ATTTGCTCCC
*
23706194 GAGACCCTTCCTCTGCCA
1 GAGACCTTTCCTCTGCCA
*
23706212 GAGACCTTTCCTCTGCCC
1 GAGACCTTTCCTCTGCCA
*
23706230 GAGACCTTTCGTCTGC
1 GAGACCTTTCCTCTGC
23706246 TTTATACACC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.13, C:0.40, G:0.19, T:0.27
Consensus pattern (18 bp):
GAGACCTTTCCTCTGCCA
Found at i:23706684 original size:2 final size:2
Alignment explanation
Indices: 23706671--23706741 Score: 112
Period size: 2 Copynumber: 37.0 Consensus size: 2
23706661 ATGTAAATAG
*
23706671 AT AT AG AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23706711 AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23706742 TATTTGTAAC
Statistics
Matches: 64, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
1 3 0.05
2 61 0.95
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
AT
Found at i:23707084 original size:18 final size:18
Alignment explanation
Indices: 23707063--23707097 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
23707053 AATGATATAT
*
23707063 TAATTAATAATAATATTA
1 TAATAAATAATAATATTA
23707081 TAATAAATAATAATATT
1 TAATAAATAATAATATT
23707098 TTATTATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TAATAAATAATAATATTA
Found at i:23708158 original size:17 final size:19
Alignment explanation
Indices: 23708131--23708169 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
23708121 GATATGGGAC
*
23708131 AAAAATGAGAA-TGATGTG
1 AAAAATGAGAATTGAAGTG
23708149 AAAAAT-AGAATTGAAGTG
1 AAAAATGAGAATTGAAGTG
23708167 AAA
1 AAA
23708170 TTTGATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.56, C:0.00, G:0.23, T:0.21
Consensus pattern (19 bp):
AAAAATGAGAATTGAAGTG
Found at i:23711817 original size:29 final size:30
Alignment explanation
Indices: 23711785--23711922 Score: 126
Period size: 29 Copynumber: 4.7 Consensus size: 30
23711775 TAGAAAAATT
* *
23711785 GGGATCAAAAATGGAGTTTTTGGACG-TTC
1 GGGATCAAAAATGGAATTTTTGGAAGTTTC
*
23711814 GGGAGT--AAAATGGTAATTTTTGAAAGTTTC
1 GGGA-TCAAAAATGG-AATTTTTGGAAGTTTC
* *
23711844 GGG-TCAAATATGGAATTTTCGGAAGTTT-
1 GGGATCAAAAATGGAATTTTTGGAAGTTTC
* * * *
23711872 GGGAACAAAAATGAAATTTTTGGAGGTTTT
1 GGGATCAAAAATGGAATTTTTGGAAGTTTC
23711902 GAGG-TCAAAAATGGAATTTTT
1 G-GGATCAAAAATGGAATTTTT
23711923 AAAAGTTCGA
Statistics
Matches: 88, Mismatches: 13, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
28 11 0.12
29 46 0.52
30 29 0.33
31 2 0.02
ACGTcount: A:0.33, C:0.06, G:0.28, T:0.34
Consensus pattern (30 bp):
GGGATCAAAAATGGAATTTTTGGAAGTTTC
Found at i:23711929 original size:59 final size:59
Alignment explanation
Indices: 23711828--23711980 Score: 166
Period size: 59 Copynumber: 2.6 Consensus size: 59
23711818 GTAAAATGGT
* * ** *
23711828 AATTTTTGAAAGTTTCG-GGTCAAATATGGAATTTTCGGAAGTTTG-GGAACAAAAATGA
1 AATTTTTGAAAGTTTTGAGGTCAAAAATGGAATTTTCAAAAGTTCGAGG-ACAAAAATGA
* * * * *
23711886 AATTTTTGGAGGTTTTGAGGTCAAAAATGGAATTTTTAAAAGTTCGAGGGCAAAAATGT
1 AATTTTTGAAAGTTTTGAGGTCAAAAATGGAATTTTCAAAAGTTCGAGGACAAAAATGA
** *
23711945 AATTTTCAAAAGTTTTGAGGTCAAAAATGTAATTTT
1 AATTTTTGAAAGTTTTGAGGTCAAAAATGGAATTTT
23711981 GGAGAACTTC
Statistics
Matches: 78, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
58 14 0.18
59 62 0.79
60 2 0.03
ACGTcount: A:0.37, C:0.06, G:0.22, T:0.35
Consensus pattern (59 bp):
AATTTTTGAAAGTTTTGAGGTCAAAAATGGAATTTTCAAAAGTTCGAGGACAAAAATGA
Found at i:23711934 original size:29 final size:30
Alignment explanation
Indices: 23711820--23711980 Score: 141
Period size: 29 Copynumber: 5.4 Consensus size: 30
23711810 GTTCGGGAGT
*
23711820 AAAATGGTAATTTTTGAAAGTTTCG-GGTCA
1 AAAATGG-AATTTTTGAAAGTTTTGAGGTCA
* * * *
23711850 AATATGGAATTTTCGGAAG-TTTG-GGAACA
1 AAAATGGAATTTTTGAAAGTTTTGAGG-TCA
* * *
23711879 AAAATGAAATTTTTGGAGGTTTTGAGGTCA
1 AAAATGGAATTTTTGAAAGTTTTGAGGTCA
* * *
23711909 AAAATGGAATTTTTAAAAG-TTCGAGGGCA
1 AAAATGGAATTTTTGAAAGTTTTGAGGTCA
* **
23711938 AAAATGTAATTTTCAAAAGTTTTGAGGTCA
1 AAAATGGAATTTTTGAAAGTTTTGAGGTCA
*
23711968 AAAATGTAATTTT
1 AAAATGGAATTTT
23711981 GGAGAACTTC
Statistics
Matches: 107, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
28 5 0.05
29 52 0.49
30 48 0.45
31 2 0.02
ACGTcount: A:0.37, C:0.06, G:0.22, T:0.35
Consensus pattern (30 bp):
AAAATGGAATTTTTGAAAGTTTTGAGGTCA
Found at i:23713158 original size:18 final size:19
Alignment explanation
Indices: 23713125--23713160 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
23713115 TTTAATGTTA
23713125 TCATTAATTATTATTAATG
1 TCATTAATTATTATTAATG
*
23713144 TCATT-ATTGTTATTAAT
1 TCATTAATTATTATTAAT
23713161 AATTTATGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (19 bp):
TCATTAATTATTATTAATG
Found at i:23713817 original size:6 final size:6
Alignment explanation
Indices: 23713806--23713895 Score: 62
Period size: 6 Copynumber: 15.5 Consensus size: 6
23713796 GTAATAAAAA
* * * * *
23713806 AAATTT AAATTT GAAA-AT AAATTT CAATTT AAATCT AAAATT -GATTT
1 AAATTT AAATTT -AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
* * * *
23713853 AAATTC AAATTT AAA-AT AAATCT AAATTT AAA-AT AAATTT AAA
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAA
23713896 AGAGCCTGGT
Statistics
Matches: 62, Mismatches: 17, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
5 14 0.23
6 45 0.73
7 3 0.05
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.39
Consensus pattern (6 bp):
AAATTT
Found at i:23713827 original size:18 final size:18
Alignment explanation
Indices: 23713801--23713835 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23713791 ACTTTGTAAT
23713801 AAAAAAAATTTAAATTTG
1 AAAAAAAATTTAAATTTG
* *
23713819 AAAATAAATTTCAATTT
1 AAAAAAAATTTAAATTT
23713836 AAATCTAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (18 bp):
AAAAAAAATTTAAATTTG
Found at i:23713845 original size:23 final size:23
Alignment explanation
Indices: 23713806--23713884 Score: 95
Period size: 23 Copynumber: 3.4 Consensus size: 23
23713796 GTAATAAAAA
23713806 AAATTTAAATTTGAAAATAAATTT
1 AAATTTAAATTT-AAAATAAATTT
* * **
23713830 CAATTTAAATCTAAAATTGATTT
1 AAATTTAAATTTAAAATAAATTT
* *
23713853 AAATTCAAATTTAAAATAAATCT
1 AAATTTAAATTTAAAATAAATTT
23713876 AAATTTAAA
1 AAATTTAAA
23713885 ATAAATTTAA
Statistics
Matches: 44, Mismatches: 11, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
23 34 0.77
24 10 0.23
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (23 bp):
AAATTTAAATTTAAAATAAATTT
Found at i:23713872 original size:17 final size:18
Alignment explanation
Indices: 23713852--23713895 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
23713842 AAAATTGATT
23713852 TAAATTC-AAATTTAAAA
1 TAAATTCTAAATTTAAAA
23713869 TAAA-TCTAAATTTAAAA
1 TAAATTCTAAATTTAAAA
23713886 TAAATT-TAAA
1 TAAATTCTAAA
23713896 AGAGCCTGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 2 0.08
17 22 0.88
18 1 0.04
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (18 bp):
TAAATTCTAAATTTAAAA
Found at i:23714628 original size:204 final size:203
Alignment explanation
Indices: 23714272--23714998 Score: 1000
Period size: 204 Copynumber: 3.6 Consensus size: 203
23714262 GTTTCCACAA
* * *
23714272 GAAGACGGATTTGGTTCACTTCTCTGTATCTCATCAGGAAGCTAACCAATTTATTGCTTCGACCT
1 GAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACC-ATTTATTGCTTCGACCT
* *
23714337 GTTTCTCAATATCTCATCAGGAAGCTGATGTTCGAAGATTTGCT-AGCATTGAGCTTGGGTTTGA
65 GCTTCTCAATATCTCATCAGGAAGCTG-GGTTCGAAGATTTGCTCA-CATTGAGC-TGGGTTTGA
23714401 TTTGGTCTTCTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCT
127 TTTGGTCTTCTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCT
23714466 GGATCTCCTCAG
192 GGATCTCCTCAG
*
23714478 GAAGACGAATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTAACCATTTATTGCTTCGACCTG
1 GAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTATTGCTTCGACCTG
* *
23714543 CTTCTCAATGTCTCATCAGGAAGCTTGGTTCGAAGATTTGCTCACATTGAGCCTGGGTTTGATTT
66 CTTCTCAATATCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCACATTGAG-CTGGGTTTGATTT
*
23714608 GGTCTTCTTCTCAATGTCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCTGGA
130 GGTCTTCTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCTGGA
23714673 TCTCCTCAG
195 TCTCCTCAG
* *
23714682 GAAGATGAATTTGGTCCACTTCTCAGTATCTCATTAGGAAGCTAACCATTTTATTGCTTCGACCT
1 GAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCA-TTTATTGCTTCGACCT
* * * *
23714747 GCTTCTCAATATCTCATCAGGAAGCTGGGGTTCGAAGATTTGTTCACATCGAG-T--G-TCGAGT
65 GCTTCTCAATATCTCATCAGGAAGCT-GGGTTCGAAGATTTGCTCACATTGAGCTGGGTTTGATT
* * * * * * *
23714808 TGG-CATACTTCTCTGTATCTCATCAGGAAGATGATCGCCTCATTTGTTTCAATTCGCTTCTCTG
129 TGGTC-TTCTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCTG
* *
23714872 TATCTCATCAG
193 GATCTCCTCAG
* * * *
23714883 GAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGATTACCGCA-TTATTGCTTCGACC
1 GAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAG-CTAAC-CATTTATTGCTTCGACC
* * * * * * *
23714947 TGCTTCTCAGTGTCTCATCAAGACGCTGGGTTCAAAGGTTTGCTCGCATTGA
64 TGCTTCTCAATATCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCACATTGA
23714999 TCGTTGAGTT
Statistics
Matches: 471, Mismatches: 43, Indels: 20
0.88 0.08 0.04
Matches are distributed among these distances:
200 21 0.04
201 141 0.30
202 4 0.01
203 2 0.00
204 153 0.32
205 84 0.18
206 66 0.14
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (203 bp):
GAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTATTGCTTCGACCTG
CTTCTCAATATCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCACATTGAGCTGGGTTTGATTTG
GTCTTCTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCTGGAT
CTCCTCAG
Found at i:23714895 original size:201 final size:202
Alignment explanation
Indices: 23714204--23715040 Score: 983
Period size: 204 Copynumber: 4.1 Consensus size: 202
23714194 GATTGGCCTT
* * * * * * * * * * * * * *
23714204 CTTCTCAGAATTTCATCAAGAAGACGACCGCGTCATTTGTTTTGATCCACTTATTTGGGTTTCCA
1 CTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCTGGATCTCCT
* * * *
23714269 CAAGAAGACGGATTTGGTTCACTTCTCTGTATCTCATCAGGAAGCTAACCAATTTATTGCTTCGA
66 CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACC-ATTTATTGCTTCGA
* *
23714334 CCTGTTTCTCAATATCTCATCAGGAAGCTGATGTTCGAAGATTTGCT-AGCATTGAGCTTGGGTT
130 CCTGCTTCTCAATATCTCATCAGGAAGCTG-GGTTCGAAGATTTGCTCA-CATTGAGC-T-GGTT
* *
23714398 TGATTTGGTCTT
191 TGAGTTGGTCTA
*
23714410 CTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCTGGATCTCCT
1 CTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCTGGATCTCCT
*
23714475 CAGGAAGACGAATTTGGTCCACTTCTCAGTGTCTCATCAGGAAGCTAACCATTTATTGCTTCGAC
66 CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTATTGCTTCGAC
* *
23714540 CTGCTTCTCAATGTCTCATCAGGAAGCTTGGTTCGAAGATTTGCTCACATTGAGCCTGGGTTTGA
131 CTGCTTCTCAATATCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCACATTGAG-CT-GGTTTGA
* *
23714605 TTTGGTCTT
194 GTTGGTCTA
* *
23714614 CTTCTCAATGTCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCTGGATCTCCT
1 CTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCTGGATCTCCT
* *
23714679 CAGGAAGATGAATTTGGTCCACTTCTCAGTATCTCATTAGGAAGCTAACCATTTTATTGCTTCGA
66 CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCA-TTTATTGCTTCGA
* * *
23714744 CCTGCTTCTCAATATCTCATCAGGAAGCTGGGGTTCGAAGATTTGTTCACATCGAG-T-G-TCGA
130 CCTGCTTCTCAATATCTCATCAGGAAGCT-GGGTTCGAAGATTTGCTCACATTGAGCTGGTTTGA
23714806 GTTGG-CATA
194 GTTGGTC-TA
* * * * * * *
23714815 CTTCTCTGTATCTCATCAGGAAGATGATCGCCTCATTTGTTTCAATTCGCTTCTCTGTATCTCAT
1 CTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCTGGATCTCCT
* * * *
23714880 CAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGATTACCGCA-TTATTGCTTCG
66 CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAG-CTAAC-CATTTATTGCTTCG
* * * * * * * *
23714944 ACCTGCTTCTCAGTGTCTCATCAAGACGCTGGGTTCAAAGGTTTGCTCGCATTGA--TCG-TTGA
129 ACCTGCTTCTCAATATCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCACATTGAGCTGGTTTGA
*
23715006 GTT-GACATA
194 GTTGGTC-TA
*
23715015 CTTCTCTGTATCTCATCAGGAAGATG
1 CTTCTCAGTATCTCATCAGGAAGATG
23715041 GTCGTCTCAA
Statistics
Matches: 562, Mismatches: 60, Indels: 24
0.87 0.09 0.04
Matches are distributed among these distances:
199 2 0.00
200 58 0.10
201 141 0.25
202 4 0.01
203 2 0.00
204 153 0.27
205 84 0.15
206 118 0.21
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (202 bp):
CTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCTGGATCTCCT
CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTATTGCTTCGAC
CTGCTTCTCAATATCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCACATTGAGCTGGTTTGAGT
TGGTCTA
Found at i:23715407 original size:49 final size:49
Alignment explanation
Indices: 23715313--23715569 Score: 173
Period size: 49 Copynumber: 5.2 Consensus size: 49
23715303 AATTTTCGTA
* * * * * *
23715313 GTACTGGATTTGTCGTTCCGACTTAAATTTTTCCCATTC-TATCTTTATG
1 GTACTGGATTCGCCGTTGCGATTTAAATCTTTCCC-TTCTTGTCTTTATG
* * *
23715362 GTACTGGATTCGTCGTTACGGTTTAAATCTTTCCCTTCTTGTCTTT-TGAG
1 GTACTGGATTCGCCGTTGCGATTTAAATCTTTCCCTTCTTGTCTTTAT--G
* * * * *
23715412 GTACACGG--TCTGCCGTTGCGACTTAGACCTTTCCCTT-TTGTATCTTTGTG
1 GTAC-TGGATTC-GCCGTTGCGATTTAAATCTTTCCCTTCTTG--TCTTTATG
* * * * * *
23715462 GTACTGGATCCACCGTTGCGATCTTAGATCTTTCCCTCCATGTCTTCATG
1 GTACTGGATTCGCCGTTGCGAT-TTAAATCTTTCCCTTCTTGTCTTTATG
* * * * **
23715512 ATACTGAATTCGCCGTTGCGGTTTAAATCTTTCTCTTCTTGTCTTCGTG
1 GTACTGGATTCGCCGTTGCGATTTAAATCTTTCCCTTCTTGTCTTTATG
23715561 GTACTGGAT
1 GTACTGGAT
23715570 CTGTCGTTGT
Statistics
Matches: 162, Mismatches: 34, Indels: 24
0.74 0.15 0.11
Matches are distributed among these distances:
48 4 0.02
49 72 0.44
50 62 0.38
51 21 0.13
52 3 0.02
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.42
Consensus pattern (49 bp):
GTACTGGATTCGCCGTTGCGATTTAAATCTTTCCCTTCTTGTCTTTATG
Found at i:23715445 original size:50 final size:51
Alignment explanation
Indices: 23715390--23715507 Score: 125
Period size: 50 Copynumber: 2.3 Consensus size: 51
23715380 CGGTTTAAAT
**
23715390 CTTTCCCTTCTTGTCTTTTGAGGTACACGG-TCTGCCGTTGCGA-CTTAGAC
1 CTTTCCCTTCTTGTCTTTTGAGGTAC-CGGATCCACCGTTGCGATCTTAGAC
* * * *
23715440 CTTTCCCTT-TTGTATCTTTGTGGTACTGGATCCACCGTTGCGATCTTAGAT
1 CTTTCCCTTCTTGTCT-TTTGAGGTACCGGATCCACCGTTGCGATCTTAGAC
* *
23715491 CTTTCCCTCCATGTCTT
1 CTTTCCCTTCTTGTCTT
23715508 CATGATACTG
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
49 7 0.13
50 29 0.53
51 15 0.27
52 4 0.07
ACGTcount: A:0.12, C:0.28, G:0.19, T:0.42
Consensus pattern (51 bp):
CTTTCCCTTCTTGTCTTTTGAGGTACCGGATCCACCGTTGCGATCTTAGAC
Found at i:23715517 original size:50 final size:50
Alignment explanation
Indices: 23715463--23715595 Score: 142
Period size: 49 Copynumber: 2.7 Consensus size: 50
23715453 ATCTTTGTGG
* *
23715463 TACTGGATCCACCGTTGCGATCTTAGATCTTTCCCTCCATGTCTTCATGA
1 TACTGGATCCGCCGTTGCGGTCTTAGATCTTTCCCTCCATGTCTTCATGA
* * * * * * * *
23715513 TACTGAATTCGCCGTTGCGGT-TTAAATCTTTCTCTTCTTGTCTTCGTGG
1 TACTGGATCCGCCGTTGCGGTCTTAGATCTTTCCCTCCATGTCTTCATGA
* * *
23715562 TACTGGATCTGTCGTTGTGGTCTTAGATCTTTCC
1 TACTGGATCCGCCGTTGCGGTCTTAGATCTTTCC
23715596 TTGTCAAACC
Statistics
Matches: 65, Mismatches: 17, Indels: 2
0.77 0.20 0.02
Matches are distributed among these distances:
49 38 0.58
50 27 0.42
ACGTcount: A:0.14, C:0.25, G:0.20, T:0.41
Consensus pattern (50 bp):
TACTGGATCCGCCGTTGCGGTCTTAGATCTTTCCCTCCATGTCTTCATGA
Found at i:23716705 original size:1 final size:1
Alignment explanation
Indices: 23716694--23716788 Score: 55
Period size: 1 Copynumber: 95.0 Consensus size: 1
23716684 CGAACTCCTC
* * * * * * * * *
23716694 TTTTCTTTTTTTTGTTTTTGTTTTTGTTTTTGTTTTTGTTTTTTTTTGTTTTTTGTTTTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * *
23716759 TGTTTTTCTTCTTCTTTTTTCTTTTCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
23716789 ATTCATTGAA
Statistics
Matches: 64, Mismatches: 30, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 64 1.00
ACGTcount: A:0.00, C:0.06, G:0.09, T:0.84
Consensus pattern (1 bp):
T
Found at i:23716711 original size:6 final size:6
Alignment explanation
Indices: 23716702--23716765 Score: 89
Period size: 6 Copynumber: 10.8 Consensus size: 6
23716692 TCTTTTCTTT
23716702 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG -TTTT- TTTTTG TTTTTTG
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG -TTTTTG
23716749 TTTTT- TGTTTTG TTTTT
1 TTTTTG T-TTTTG TTTTT
23716766 CTTCTTCTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
5 9 0.17
6 37 0.70
7 7 0.13
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (6 bp):
TTTTTG
Found at i:23716747 original size:35 final size:34
Alignment explanation
Indices: 23716699--23716765 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 34
23716689 TCCTCTTTTC
23716699 TTTTTTTTGTTTTTG-TTTTTGTTTTTGTTTTTGT
1 TTTTTTTTGTTTTTGTTTTTTG-TTTTGTTTTTGT
23716733 TTTTTTTTGTTTTTTGTTTTTTGTTTTGTTTTT
1 TTTTTTTTG-TTTTTGTTTTTTGTTTTGTTTTT
23716766 CTTCTTCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
34 9 0.29
35 16 0.52
36 6 0.19
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (34 bp):
TTTTTTTTGTTTTTGTTTTTTGTTTTGTTTTTGT
Found at i:23716776 original size:24 final size:23
Alignment explanation
Indices: 23716696--23716788 Score: 82
Period size: 24 Copynumber: 3.9 Consensus size: 23
23716686 AACTCCTCTT
*
23716696 TTCTTTTTTTTGTTTTTGTTTTTG
1 TTCTTTTTTTTG-TTTTGTTTTTC
*
23716720 TT-TTTGTTTTTGTTTT-TTTTTGT
1 TTCTTT-TTTTTGTTTTGTTTTT-C
*
23716743 TTTTTGTTTTTTGTTTTGTTTTTC
1 TTCTT-TTTTTTGTTTTGTTTTTC
* *
23716767 TTCTTCTTTTTTCTTTTCTTTT
1 TTCTT-TTTTTTGTTTTGTTTT
23716789 ATTCATTGAA
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
22 5 0.09
23 9 0.16
24 38 0.66
25 6 0.10
ACGTcount: A:0.00, C:0.06, G:0.10, T:0.84
Consensus pattern (23 bp):
TTCTTTTTTTTGTTTTGTTTTTC
Found at i:23716777 original size:18 final size:18
Alignment explanation
Indices: 23716696--23716783 Score: 76
Period size: 19 Copynumber: 4.9 Consensus size: 18
23716686 AACTCCTCTT
*
23716696 TTCTTTTTTTTGTTTTTG
1 TTCTTTTTTTTGTTTTTC
23716714 TT-TTTGTTTTTGTTTTT-
1 TTCTTT-TTTTTGTTTTTC
*
23716731 GT-TTTTTTTTGTTTTT-
1 TTCTTTTTTTTGTTTTTC
*
23716747 TGTTTTTTGTTTTGTTTTTC
1 T-TCTTTT-TTTTGTTTTTC
*
23716767 TTCTTCTTTTTTCTTTT
1 TTCTT-TTTTTTGTTTT
23716784 CTTTTATTCA
Statistics
Matches: 60, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
16 11 0.18
17 8 0.13
18 17 0.28
19 21 0.35
20 3 0.05
ACGTcount: A:0.00, C:0.06, G:0.10, T:0.84
Consensus pattern (18 bp):
TTCTTTTTTTTGTTTTTC
Found at i:23716777 original size:41 final size:41
Alignment explanation
Indices: 23716701--23716778 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
23716691 CTCTTTTCTT
* * *
23716701 TTTTTTGTTTTTGTTTTTGTTTTTGTTTTTGTTTTTTTTTG
1 TTTTTTGTTTTTGTTTTTGTTTTTCTTCTTCTTTTTTTTTG
23716742 TTTTTTGTTTTT-TGTTTTGTTTTTCTTCTTCTTTTTT
1 TTTTTTGTTTTTGT-TTTTGTTTTTCTTCTTCTTTTTT
23716779 CTTTTCTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 1 0.03
41 32 0.97
ACGTcount: A:0.00, C:0.04, G:0.12, T:0.85
Consensus pattern (41 bp):
TTTTTTGTTTTTGTTTTTGTTTTTCTTCTTCTTTTTTTTTG
Found at i:23716783 original size:7 final size:7
Alignment explanation
Indices: 23716701--23716759 Score: 70
Period size: 7 Copynumber: 8.6 Consensus size: 7
23716691 CTCTTTTCTT
23716701 TTTTTTG
1 TTTTTTG
23716708 -TTTTTG
1 TTTTTTG
23716714 -TTTTTG
1 TTTTTTG
23716720 -TTTTTG
1 TTTTTTG
*
23716726 TTTTTGTTT
1 -TTTT-TTG
23716735 TTTTTTG
1 TTTTTTG
23716742 TTTTTTG
1 TTTTTTG
23716749 TTTTTTG
1 TTTTTTG
23716756 TTTT
1 TTTT
23716760 GTTTTTCTTC
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
6 18 0.38
7 20 0.43
8 7 0.15
9 2 0.04
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (7 bp):
TTTTTTG
Found at i:23717639 original size:4 final size:4
Alignment explanation
Indices: 23717630--23717656 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
23717620 TTTTCTTCCT
23717630 TTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT
23717657 TTTTTTTGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:23722712 original size:30 final size:29
Alignment explanation
Indices: 23722619--23722819 Score: 183
Period size: 30 Copynumber: 6.8 Consensus size: 29
23722609 GTCCGAGGGT
* *
23722619 AAAATGGTAATTTTTGAAAGTTTCGGGTCA
1 AAAAT-GTAATTTTTGGAAGTTTGGGGTCA
* *
23722649 AAAATAG-AATTTTTGAAAGTTTGGGGGCA
1 AAAAT-GTAATTTTTGGAAGTTTGGGGTCA
**
23722678 AAAATGTAATTTTTGGAAGTTTCAAGGTCA
1 AAAATGTAATTTTTGGAAGTTT-GGGGTCA
* * *
23722708 AAAATTTATTTTTTGGAAGTTTGGGGGT-G
1 AAAATGTAATTTTTGGAAGTTT-GGGGTCA
* *
23722737 AAAATGTAATTTTTGGAAGTTTTGGAGTTA
1 AAAATGTAATTTTTGGAAG-TTTGGGGTCA
*
23722767 AAAATGTAATTTTGGAGAAGTTTGGGGGTCA
1 AAAATGTAATTTTTG-GAAGTTT-GGGGTCA
**
23722798 AAAA-ACAATTTTTGGATAGTTT
1 AAAATGTAATTTTTGGA-AGTTT
23722820 AGGGACCTCC
Statistics
Matches: 141, Mismatches: 23, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
28 1 0.01
29 62 0.44
30 65 0.46
31 13 0.09
ACGTcount: A:0.34, C:0.03, G:0.25, T:0.38
Consensus pattern (29 bp):
AAAATGTAATTTTTGGAAGTTTGGGGTCA
Found at i:23722721 original size:59 final size:58
Alignment explanation
Indices: 23722619--23722819 Score: 215
Period size: 59 Copynumber: 3.4 Consensus size: 58
23722609 GTCCGAGGGT
* *
23722619 AAAATGGTAATTTTTGAAAGTTTCGGGTCAAAAATAGAATTTTTGAAAGTTTGGGGGCA
1 AAAAT-GTAATTTTTGGAAGTTTCGGGTCAAAAATATAATTTTTGAAAGTTTGGGGGCA
* * * * **
23722678 AAAATGTAATTTTTGGAAGTTTCAAGGTCAAAAATTTATTTTTTGGAAGTTTGGGGGTG
1 AAAATGTAATTTTTGGAAGTTTC-GGGTCAAAAATATAATTTTTGAAAGTTTGGGGGCA
* * * *
23722737 AAAATGTAATTTTTGGAAGTTTTGGAGTTAAAAATGTAATTTTGGAGAAGTTTGGGGGTCA
1 AAAATGTAATTTTTGGAAGTTTCGG-GTCAAAAATATAATTTTTGA-AAGTTTGGGGG-CA
**
23722798 AAAA-ACAATTTTTGGATAGTTT
1 AAAATGTAATTTTTGGA-AGTTT
23722820 AGGGACCTCC
Statistics
Matches: 118, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
58 18 0.15
59 70 0.59
60 21 0.18
61 9 0.08
ACGTcount: A:0.34, C:0.03, G:0.25, T:0.38
Consensus pattern (58 bp):
AAAATGTAATTTTTGGAAGTTTCGGGTCAAAAATATAATTTTTGAAAGTTTGGGGGCA
Found at i:23724005 original size:18 final size:19
Alignment explanation
Indices: 23723972--23724007 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
23723962 TTTAATGTTA
23723972 TCATTAATTATTATTAATG
1 TCATTAATTATTATTAATG
*
23723991 TCATT-ATTGTTATTAAT
1 TCATTAATTATTATTAAT
23724008 AATTTATGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (19 bp):
TCATTAATTATTATTAATG
Found at i:23724692 original size:6 final size:6
Alignment explanation
Indices: 23724683--23724766 Score: 86
Period size: 6 Copynumber: 14.7 Consensus size: 6
23724673 ATTTTGGAAA
* *
23724683 TAAATT TAAATT TAAA-T TAAATT TAAATC TAAAAT T-AATT TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
* * * *
23724729 CAAATT TAAA-A TAAATC TAAATT TAAA-A TAAATT TAAA
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAA
23724767 AGAGCCCAGC
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
5 17 0.27
6 46 0.73
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (6 bp):
TAAATT
Found at i:23724705 original size:17 final size:17
Alignment explanation
Indices: 23724683--23724766 Score: 80
Period size: 17 Copynumber: 4.9 Consensus size: 17
23724673 ATTTTGGAAA
23724683 TAAATTTAAATTTAAA-T
1 TAAA-TTAAATTTAAATT
* *
23724700 TAAATTTAAATCTAAAAT
1 TAAA-TTAAATTTAAATT
* *
23724718 TAATTTAAATTCAAATT
1 TAAATTAAATTTAAATT
* *
23724735 TAAAATAAATCTAAATT
1 TAAATTAAATTTAAATT
*
23724752 TAAAATAAATTTAAA
1 TAAATTAAATTTAAA
23724767 AGAGCCCAGC
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
17 52 0.93
18 4 0.07
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAATTAAATTTAAATT
Found at i:23724710 original size:23 final size:23
Alignment explanation
Indices: 23724683--23724766 Score: 91
Period size: 23 Copynumber: 3.7 Consensus size: 23
23724673 ATTTTGGAAA
23724683 TAAATTTAAATTTAAATTAAATT
1 TAAATTTAAATTTAAATTAAATT
* * *
23724706 TAAATCTAAAATTAATTTAAATT
1 TAAATTTAAATTTAAATTAAATT
* *
23724729 CAAATTTAAA-ATAAATCTAAATT
1 TAAATTTAAATTTAAAT-TAAATT
*
23724752 TAAA-ATAAATTTAAA
1 TAAATTTAAATTTAAA
23724767 AGAGCCCAGC
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
22 8 0.16
23 41 0.84
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (23 bp):
TAAATTTAAATTTAAATTAAATT
Found at i:23724728 original size:34 final size:34
Alignment explanation
Indices: 23724680--23724766 Score: 104
Period size: 34 Copynumber: 2.6 Consensus size: 34
23724670 TTAATTTTGG
* *
23724680 AAATAAATTTAAATTTAAA-TTAAATTTAAATCTA
1 AAATTAATTTAAATTTAAATTTAAA-ATAAATCTA
*
23724714 AAATTAATTTAAATTCAAATTTAAAATAAATCTA
1 AAATTAATTTAAATTTAAATTTAAAATAAATCTA
* **
23724748 AATTTAAAATAAATTTAAA
1 AAATTAATTTAAATTTAAA
23724767 AGAGCCCAGC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 40 0.89
35 5 0.11
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.39
Consensus pattern (34 bp):
AAATTAATTTAAATTTAAATTTAAAATAAATCTA
Found at i:23728263 original size:18 final size:18
Alignment explanation
Indices: 23728237--23728271 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23728227 AATGATATAT
* *
23728237 TAATTAATAATATTATTA
1 TAATAAATAATAATATTA
23728255 TAATAAATAATAATATT
1 TAATAAATAATAATATT
23728272 TTATTATTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATAAATAATAATATTA
Found at i:23729339 original size:17 final size:19
Alignment explanation
Indices: 23729312--23729350 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
23729302 GATATGGGAC
*
23729312 AAAAATGAGAA-TGATGTG
1 AAAAATGAGAATTGAAGTG
23729330 AAAAAT-AGAATTGAAGTG
1 AAAAATGAGAATTGAAGTG
23729348 AAA
1 AAA
23729351 TTTGATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.56, C:0.00, G:0.23, T:0.21
Consensus pattern (19 bp):
AAAAATGAGAATTGAAGTG
Found at i:23739632 original size:16 final size:17
Alignment explanation
Indices: 23739599--23739639 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
23739589 ATGCATATTC
*
23739599 ATATAT-AATGCTTCAA
1 ATATATAAAAGCTTCAA
23739615 ATATATAAAAGCTT-AA
1 ATATATAAAAGCTTCAA
*
23739631 ATAAATAAA
1 ATATATAAA
23739640 TATCTATCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.32
Consensus pattern (17 bp):
ATATATAAAAGCTTCAA
Found at i:23755655 original size:18 final size:18
Alignment explanation
Indices: 23755613--23755655 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
23755603 ATTTTAATTA
23755613 TTTTTTTCTAATTTTTAC
1 TTTTTTTCTAATTTTTAC
* *
23755631 TTATTTTC-AGATTTTTTC
1 TTTTTTTCTA-ATTTTTAC
23755649 TTTTTTT
1 TTTTTTT
23755656 TATTGATGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.74
Consensus pattern (18 bp):
TTTTTTTCTAATTTTTAC
Found at i:23757592 original size:15 final size:15
Alignment explanation
Indices: 23757555--23757600 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
23757545 CCGGGTTTTT
*
23757555 TACTAAAATAATACA
1 TACTAAAATAATATA
* **
23757570 AAAAAAAATAATATA
1 TACTAAAATAATATA
23757585 TACTAAAATAATATA
1 TACTAAAATAATATA
23757600 T
1 T
23757601 TCTCCCCGTT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (15 bp):
TACTAAAATAATATA
Found at i:23757796 original size:27 final size:27
Alignment explanation
Indices: 23757758--23757820 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
23757748 GTATAAATGG
23757758 GTGGTGCCTACCTGACAGGCGGCACCA
1 GTGGTGCCTACCTGACAGGCGGCACCA
*
23757785 GTGGTGCCTACCTGTCAGGCGGCACCA
1 GTGGTGCCTACCTGACAGGCGGCACCA
*
23757812 ATGGTGCCT
1 GTGGTGCCT
23757821 TTCTATCAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.16, C:0.32, G:0.33, T:0.19
Consensus pattern (27 bp):
GTGGTGCCTACCTGACAGGCGGCACCA
Found at i:23757829 original size:27 final size:27
Alignment explanation
Indices: 23757759--23757839 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
23757749 TATAAATGGG
*
23757759 TGGTGCCTACCTGA-CAGGCGGCACCAG
1 TGGTGCCTACCT-ATCAGGCGGCACCAA
*
23757786 TGGTGCCTACCTGTCAGGCGGCACCAA
1 TGGTGCCTACCTATCAGGCGGCACCAA
** *
23757813 TGGTGCCTTTCTATCAGGTGGCACCAA
1 TGGTGCCTACCTATCAGGCGGCACCAA
23757840 CTCGTATTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.19, C:0.31, G:0.30, T:0.21
Consensus pattern (27 bp):
TGGTGCCTACCTATCAGGCGGCACCAA
Found at i:23758107 original size:57 final size:55
Alignment explanation
Indices: 23757993--23758123 Score: 142
Period size: 57 Copynumber: 2.4 Consensus size: 55
23757983 AAAAATTAAA
* * *
23757993 TTAAATATTAAATAAAAATAACTCAATATTTTTAAATAAATAATATAAAAAATAT
1 TTAAATATAAAATAATAATAACTCAAGATTTTTAAATAAATAATATAAAAAATAT
** * *
23758048 TTATTTATCAAAATAATAATAATCTCCAGATTTTTACAAT-AATAATATAAGAGAA-AT
1 TTAAATAT-AAAATAATAATAA-CTCAAGATTTTTA-AATAAATAATATAA-AAAATAT
23758105 TTAAATATAAAA-AATAATA
1 TTAAATATAAAATAATAATA
23758124 CACTTTTATA
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
55 13 0.21
56 15 0.24
57 29 0.46
58 6 0.10
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.36
Consensus pattern (55 bp):
TTAAATATAAAATAATAATAACTCAAGATTTTTAAATAAATAATATAAAAAATAT
Found at i:23758230 original size:27 final size:27
Alignment explanation
Indices: 23758189--23758249 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
23758179 TTTGACAAGA
23758189 GGTGCCTACCAGGTAGGCGGCACTAGT
1 GGTGCCTACCAGGTAGGCGGCACTAGT
**
23758216 GGTGCCTACTGGGTAGGCGGCACTAGT
1 GGTGCCTACCAGGTAGGCGGCACTAGT
23758243 GGTGCCT
1 GGTGCCT
23758250 TTGTCAATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.15, C:0.25, G:0.39, T:0.21
Consensus pattern (27 bp):
GGTGCCTACCAGGTAGGCGGCACTAGT
Found at i:23758381 original size:26 final size:26
Alignment explanation
Indices: 23758324--23758381 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
23758314 GTAAATTTTT
* * *
23758324 GAAGAAGGAAAGGAAACAAAAGTTTT
1 GAAGAAGAAAAGGAAACAAAAGGTTA
*
23758350 GAAGAAGAAAAGGAAACAGAAGGTTA
1 GAAGAAGAAAAGGAAACAAAAGGTTA
*
23758376 GCAGAA
1 GAAGAA
23758382 AATTTTAACT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.55, C:0.05, G:0.29, T:0.10
Consensus pattern (26 bp):
GAAGAAGAAAAGGAAACAAAAGGTTA
Found at i:23761181 original size:28 final size:28
Alignment explanation
Indices: 23761128--23761185 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
23761118 CATTTTTCTG
*
23761128 TTGGAATTAATTAAATTTATGATTGAAT
1 TTGGAATTAATTAAATTTATAATTGAAT
**
23761156 TTGGAATTAATTCTATTTA-AATTTGAAT
1 TTGGAATTAATTAAATTTATAA-TTGAAT
23761184 TT
1 TT
23761186 ATTTAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 1 0.04
28 25 0.96
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (28 bp):
TTGGAATTAATTAAATTTATAATTGAAT
Found at i:23761226 original size:26 final size:26
Alignment explanation
Indices: 23761177--23761226 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
23761167 TCTATTTAAA
* **
23761177 TTTGAATTTATTTAATAATTTTTATG
1 TTTGAATTAATTTAATAAGGTTTATG
*
23761203 TTTGAATTAATTTAATTAGGTTTA
1 TTTGAATTAATTTAATAAGGTTTA
23761227 GCAAATGACA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (26 bp):
TTTGAATTAATTTAATAAGGTTTATG
Found at i:23761303 original size:6 final size:6
Alignment explanation
Indices: 23761292--23761320 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
23761282 ATATTTGCAT
23761292 ACATAA ACATAA ACATAA ACATAA ACATA
1 ACATAA ACATAA ACATAA ACATAA ACATA
23761321 TTTAATGGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
ACATAA
Found at i:23763760 original size:17 final size:16
Alignment explanation
Indices: 23763728--23763759 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
23763718 TTCATTTTAA
23763728 AAAATATTTAATATAT
1 AAAATATTTAATATAT
23763744 AAAATATTTAA-ATAT
1 AAAATATTTAATATAT
23763759 A
1 A
23763760 TCAATTGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAAATATTTAATATAT
Found at i:23765135 original size:42 final size:42
Alignment explanation
Indices: 23765083--23765166 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
23765073 CCAAATATTT
* *
23765083 TTAAACCCAAATATAATTTCATTTTTAAAAAACATTCATAAA
1 TTAAACCCAAATATAATTTCATTCTTAAAAAACACTCATAAA
* * *
23765125 TTAAATCCAAATATAATTTTATTCTTAAATAACACTCATAAA
1 TTAAACCCAAATATAATTTCATTCTTAAAAAACACTCATAAA
23765167 CAACTCCTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (42 bp):
TTAAACCCAAATATAATTTCATTCTTAAAAAACACTCATAAA
Found at i:23766363 original size:191 final size:191
Alignment explanation
Indices: 23766039--23766418 Score: 697
Period size: 191 Copynumber: 2.0 Consensus size: 191
23766029 ATCTTAAAAT
* *
23766039 TTTTCACAAAACAAGACATTTATCTTGATACTTATAATAATAAATGTTATTAAATAAAGTACTTA
1 TTTTCACAAAACAAGACATTTATCTTGATACTTATAATAATAAATCTTATCAAATAAAGTACTTA
**
23766104 TGATTCTGAGCTAAGAGATACGTTGAAATTGCAAATTTGGCTTTTAAGAAGGTGTTGGATTTGGC
66 TGATTCTGAGCTAAGAGATACGTTGAAATTGCAAATTTGGCTTTTAAGAAGGTGCCGGATTTGGC
23766169 GAACAATTCAATTGGAGTCCAAATCCTTCAAGCTTTCAATCGAATGAACTTTTTCGTTAAA
131 GAACAATTCAATTGGAGTCCAAATCCTTCAAGCTTTCAATCGAATGAACTTTTTCGTTAAA
*
23766230 TTTTCACAAAACAAGACCTTTATCTTGATACTTATAATAATAAATCTTATCAAATAAAGTACTTA
1 TTTTCACAAAACAAGACATTTATCTTGATACTTATAATAATAAATCTTATCAAATAAAGTACTTA
23766295 TGATTCTGAGCTAAGAGATACGTTGAAATTGCAAATTTGGCTTTTAAGAAGGTGCCGGATTTGGC
66 TGATTCTGAGCTAAGAGATACGTTGAAATTGCAAATTTGGCTTTTAAGAAGGTGCCGGATTTGGC
* *
23766360 GAACAATTTAATTGGAGTCCAAATCCTTCAAGCTTTCAATCGAATGAACTTTTTTGTTA
131 GAACAATTCAATTGGAGTCCAAATCCTTCAAGCTTTCAATCGAATGAACTTTTTCGTTA
23766419 TTCTCGAACT
Statistics
Matches: 182, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
191 182 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.36
Consensus pattern (191 bp):
TTTTCACAAAACAAGACATTTATCTTGATACTTATAATAATAAATCTTATCAAATAAAGTACTTA
TGATTCTGAGCTAAGAGATACGTTGAAATTGCAAATTTGGCTTTTAAGAAGGTGCCGGATTTGGC
GAACAATTCAATTGGAGTCCAAATCCTTCAAGCTTTCAATCGAATGAACTTTTTCGTTAAA
Found at i:23770278 original size:11 final size:10
Alignment explanation
Indices: 23770250--23770294 Score: 56
Period size: 11 Copynumber: 4.4 Consensus size: 10
23770240 TTATATGTTT
23770250 TAAAAAATTA
1 TAAAAAATTA
23770260 T-AAAAATTA
1 TAAAAAATTA
23770269 TAAAATAATTA
1 TAAAA-AATTA
*
23770280 TAAAGAATATA
1 TAAAAAAT-TA
23770291 TAAA
1 TAAA
23770295 CAAAATTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
9 9 0.29
10 7 0.23
11 15 0.48
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:23770280 original size:20 final size:21
Alignment explanation
Indices: 23770250--23770294 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
23770240 TTATATGTTT
23770250 TAAAAAATTATAAA-AAT-TA
1 TAAAAAATTATAAAGAATATA
23770269 TAAAATAATTATAAAGAATATA
1 TAAAA-AATTATAAAGAATATA
23770291 TAAA
1 TAAA
23770295 CAAAATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.22
20 9 0.39
21 3 0.13
22 6 0.26
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (21 bp):
TAAAAAATTATAAAGAATATA
Found at i:23773437 original size:6 final size:6
Alignment explanation
Indices: 23773428--23773462 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
23773418 ATGTATATGT
23773428 ATATAC ATATAC ATATAC ATATAC ATATAC ATATA
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATA
23773463 TGACAACAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAC
Found at i:23773778 original size:21 final size:20
Alignment explanation
Indices: 23773720--23773778 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 20
23773710 TAACAGAAAA
23773720 GAACAAAAAATGTATTAGATT
1 GAACAAAAAA-GTATTAGATT
* *
23773741 GATCAAATACGAGTATTAGATT
1 GAACAAA-A-AAGTATTAGATT
23773763 GAACTAAAAAAGTATT
1 GAAC-AAAAAAGTATT
23773779 TCTCGTGACA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
21 12 0.39
22 15 0.48
23 4 0.13
ACGTcount: A:0.49, C:0.07, G:0.15, T:0.29
Consensus pattern (20 bp):
GAACAAAAAAGTATTAGATT
Found at i:23777341 original size:2 final size:2
Alignment explanation
Indices: 23777336--23777381 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
23777326 TTAAAAAAAA
23777336 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23777378 AT AT
1 AT AT
23777382 GTCTTAATCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23779533 original size:17 final size:20
Alignment explanation
Indices: 23779493--23779534 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 20
23779483 AATGATTAGT
*
23779493 ATAAGTGGTTATTCCGAAAG
1 ATAAGTGGTTATTCCGAAAA
23779513 ATAAGTGG-T-TT-CGAAAA
1 ATAAGTGGTTATTCCGAAAA
23779530 ATAAG
1 ATAAG
23779535 GTATGAGATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 10 0.48
18 2 0.10
19 1 0.05
20 8 0.38
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (20 bp):
ATAAGTGGTTATTCCGAAAA
Found at i:23781102 original size:27 final size:27
Alignment explanation
Indices: 23781060--23781231 Score: 157
Period size: 27 Copynumber: 6.4 Consensus size: 27
23781050 AAGTCTGAGC
* * *
23781060 AATGAGCGATATTCTGTATCTAGTTCG
1 AATGAGCGATAATCTGTATCTGGCTCG
23781087 AATGAGCGATAATCTGTATCTGGCTCG
1 AATGAGCGATAATCTGTATCTGGCTCG
* * *
23781114 AATGAGCGATAATCTATATTTGGCTTG
1 AATGAGCGATAATCTGTATCTGGCTCG
* *
23781141 AATGAGCAATATTCTGTATCTGGCTCG
1 AATGAGCGATAATCTGTATCTGGCTCG
* * * * **
23781168 AATGATCGATATTTTGTATTTGTATCG
1 AATGAGCGATAATCTGTATCTGGCTCG
* * * * *
23781195 AATGAACAAT-ATTTGTATATGGCTTG
1 AATGAGCGATAATCTGTATCTGGCTCG
*
23781221 AACGAGCGATA
1 AATGAGCGATA
23781232 TTCTATTATT
Statistics
Matches: 117, Mismatches: 27, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
26 18 0.15
27 99 0.85
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.35
Consensus pattern (27 bp):
AATGAGCGATAATCTGTATCTGGCTCG
Found at i:23781196 original size:81 final size:80
Alignment explanation
Indices: 23781060--23781235 Score: 208
Period size: 81 Copynumber: 2.2 Consensus size: 80
23781050 AAGTCTGAGC
* * * *
23781060 AATGAGCGATATTCTGTATCTAGTTCGAATGAGCGATAATCTGTATCTGGCTCGAATGAGCGATA
1 AATGAGCGATATTCTGTATCTAGCTCGAATGAGCGATAATCTGTATCTGGATCGAATGAACAAT-
*
23781125 ATCTATATTTGGCTTG
65 ATCTATATATGGCTTG
* * * * * * *
23781141 AATGAGCAATATTCTGTATCTGGCTCGAATGATCGATATTTTGTATTTGTATCGAATGAACAATA
1 AATGAGCGATATTCTGTATCTAGCTCGAATGAGCGATAATCTGTATCTGGATCGAATGAACAATA
* *
23781206 TTTGTATATGGCTTG
66 TCTATATATGGCTTG
*
23781221 AACGAGCGATATTCT
1 AATGAGCGATATTCT
23781236 ATTATTGCTG
Statistics
Matches: 79, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
80 26 0.33
81 53 0.67
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (80 bp):
AATGAGCGATATTCTGTATCTAGCTCGAATGAGCGATAATCTGTATCTGGATCGAATGAACAATA
TCTATATATGGCTTG
Found at i:23785248 original size:20 final size:19
Alignment explanation
Indices: 23785223--23785284 Score: 79
Period size: 20 Copynumber: 3.1 Consensus size: 19
23785213 ATGAATATGA
23785223 TTGCTTAAAGTATCTATACT
1 TTGCTTAAAGTAT-TATACT
* *
23785243 TTGCTTAAAGTATTTGTACA
1 TTGCTTAAAGTA-TTATACT
23785263 TTGCTTAAAGTATTGATACT
1 TTGCTTAAAGTATT-ATACT
23785283 TT
1 TT
23785285 TCTCAAAATG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.06
20 33 0.92
21 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.13, T:0.47
Consensus pattern (19 bp):
TTGCTTAAAGTATTATACT
Found at i:23797238 original size:12 final size:12
Alignment explanation
Indices: 23797221--23797246 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23797211 TTGATTCAAT
23797221 TTTTTTTTTTAC
1 TTTTTTTTTTAC
23797233 TTTTTTTTTTAC
1 TTTTTTTTTTAC
23797245 TT
1 TT
23797247 AAACCCAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTTTTTAC
Found at i:23805473 original size:17 final size:17
Alignment explanation
Indices: 23805443--23805476 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23805433 TTTTCAATCC
**
23805443 TTTAAATTTTTAAAAAT
1 TTTAAATTAATAAAAAT
23805460 TTTAAATTAATAAAAAT
1 TTTAAATTAATAAAAAT
23805477 AAAATTGTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTAAATTAATAAAAAT
Found at i:23806516 original size:21 final size:21
Alignment explanation
Indices: 23806469--23806526 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
23806459 GACTGTGCAG
** *
23806469 ATTTCTACCGATACCTGTGCT
1 ATTTCTACCGATACAAGTACT
* *
23806490 AGTTCTACCGATACAAGTATT
1 ATTTCTACCGATACAAGTACT
23806511 ATTTCTACCGATACAA
1 ATTTCTACCGATACAA
23806527 ATCATGCAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.34
Consensus pattern (21 bp):
ATTTCTACCGATACAAGTACT
Found at i:23811334 original size:24 final size:24
Alignment explanation
Indices: 23811283--23811347 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
23811273 TAAAATGATT
23811283 ATATATAAAATTTTAATAAATAAAAA
1 ATATATAAAA--TTAATAAATAAAAA
* **
23811309 ATATATAAAATTATTAAATATTAA
1 ATATATAAAATTAATAAATAAAAA
*
23811333 AT-TAAAAAATTAATA
1 ATATATAAAATTAATA
23811348 TGACCATGCT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
23 11 0.32
24 13 0.38
26 10 0.29
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
ATATATAAAATTAATAAATAAAAA
Found at i:23815964 original size:24 final size:24
Alignment explanation
Indices: 23815919--23815970 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
23815909 TTTATAGAAA
* **
23815919 ATTTTGTAATTATTAGTGTAATAT
1 ATTTTGCAATTATTAGCATAATAT
* *
23815943 ATTTTGCATTTATTAGCATAATTT
1 ATTTTGCAATTATTAGCATAATAT
23815967 ATTT
1 ATTT
23815971 GGCCTACGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.04, G:0.10, T:0.56
Consensus pattern (24 bp):
ATTTTGCAATTATTAGCATAATAT
Found at i:23819607 original size:3 final size:3
Alignment explanation
Indices: 23819599--23819626 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
23819589 TATTTCGATC
23819599 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
23819627 GTTCTTACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:23824636 original size:34 final size:34
Alignment explanation
Indices: 23824557--23824628 Score: 121
Period size: 33 Copynumber: 2.1 Consensus size: 34
23824547 CATAAACTAA
23824557 ACCCAAATATTTTTAATTTTTTACCTTTTATCTT
1 ACCCAAATATTTTTAATTTTTTACCTTTTATCTT
23824591 ACCCAAATATTTTTAA-TTTTTACCTTTTA-CTTT
1 ACCCAAATATTTTTAATTTTTTACCTTTTATC-TT
23824624 ACCCA
1 ACCCA
23824629 TATTATTTAC
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
32 1 0.03
33 20 0.54
34 16 0.43
ACGTcount: A:0.28, C:0.21, G:0.00, T:0.51
Consensus pattern (34 bp):
ACCCAAATATTTTTAATTTTTTACCTTTTATCTT
Found at i:23827479 original size:16 final size:16
Alignment explanation
Indices: 23827460--23827490 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23827450 AAATCTATTC
*
23827460 AACTTAAACTCAAAAT
1 AACTCAAACTCAAAAT
23827476 AACTCAAACTCAAAA
1 AACTCAAACTCAAAA
23827491 GGACTTGAGC
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:0.58, C:0.23, G:0.00, T:0.19
Consensus pattern (16 bp):
AACTCAAACTCAAAAT
Found at i:23831833 original size:19 final size:21
Alignment explanation
Indices: 23831789--23831833 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
23831779 CCTAAAACGG
*
23831789 TAAATTTTTTATTTAAATCTT
1 TAAATTCTTTATTTAAATCTT
23831810 T-AATTCTTT-TTTAAAT-TT
1 TAAATTCTTTATTTAAATCTT
23831828 TAAATT
1 TAAATT
23831834 AGTAAAGGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 3 0.14
19 11 0.50
20 7 0.32
21 1 0.05
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (21 bp):
TAAATTCTTTATTTAAATCTT
Found at i:23835805 original size:24 final size:24
Alignment explanation
Indices: 23835777--23835833 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
23835767 TAGAGTAATA
*
23835777 AGAGTTTGACTCAAACAAATAAAT
1 AGAGTTTAACTCAAACAAATAAAT
* * *
23835801 AGAGTTTAATTGAAACAAATAAAC
1 AGAGTTTAACTCAAACAAATAAAT
*
23835825 AAAGTTTAA
1 AGAGTTTAA
23835834 TTGAAATAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.26
Consensus pattern (24 bp):
AGAGTTTAACTCAAACAAATAAAT
Found at i:23835834 original size:24 final size:24
Alignment explanation
Indices: 23835789--23835887 Score: 110
Period size: 24 Copynumber: 4.1 Consensus size: 24
23835779 AGTTTGACTC
* *
23835789 AAACAAATAAATAGAGTTTAATTG
1 AAACAAATAAACAAAGTTTAATTG
23835813 AAACAAATAAACAAAGTTTAATTG
1 AAACAAATAAACAAAGTTTAATTG
* * * *
23835837 AAATAATTAAACAGACTTTAATTG
1 AAACAAATAAACAAAGTTTAATTG
* *
23835861 AAACAATTAAACATAA-TTTAACTG
1 AAACAAATAAACA-AAGTTTAATTG
23835885 AAA
1 AAA
23835888 AATTATTTCT
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
24 64 0.98
25 1 0.02
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (24 bp):
AAACAAATAAACAAAGTTTAATTG
Found at i:23835857 original size:48 final size:47
Alignment explanation
Indices: 23835796--23835892 Score: 133
Period size: 48 Copynumber: 2.0 Consensus size: 47
23835786 CTCAAACAAA
* * *
23835796 TAAATAGAGTTTAATTGAAACAAATAAACA-AAGTTTAATTGAAATAAT
1 TAAACAGACTTTAATTGAAACAAATAAACATAA-TTTAACTGAAA-AAT
*
23835844 TAAACAGACTTTAATTGAAACAATTAAACATAATTTAACTGAAAAAT
1 TAAACAGACTTTAATTGAAACAAATAAACATAATTTAACTGAAAAAT
23835891 TA
1 TA
23835893 TTTCTCAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
47 5 0.11
48 37 0.84
49 2 0.05
ACGTcount: A:0.54, C:0.07, G:0.08, T:0.31
Consensus pattern (47 bp):
TAAACAGACTTTAATTGAAACAAATAAACATAATTTAACTGAAAAAT
Found at i:23837746 original size:30 final size:30
Alignment explanation
Indices: 23837684--23838097 Score: 548
Period size: 30 Copynumber: 13.8 Consensus size: 30
23837674 GGATTTAGGG
* *
23837684 AAGTTTGGGGGT-AAAATAGTAATTTTTG-A
1 AAGTTTTGGGGTCAAAAT-GTAATTTTGGAA
* * * *
23837713 AAGTTTCGGGGTCAAAATATACTTTTCGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
23837743 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
23837773 AAGTTTTGGGGTCAAAATGTAATTTTAGG-A
1 AAGTTTTGGGGTCAAAATGTAATTTT-GGAA
* *
23837803 AAGTTTTGAGGTCAAAATGTAATTTTGGTA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*** *
23837833 AAGTTTCAAGGTCAAAATATAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
23837863 AAGTTTTGGGGTCAAAATGTAATTTAGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
23837893 AAGTTTTGGGGTTAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
***
23837923 AAGTTTCAAGGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* *
23837953 AAGTTTTGAGGTCAAAATGTAATTTAGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* *
23837983 AAGTTTCT-GGGTTAAAATGTAATTTAGGAA
1 AAGTTT-TGGGGTCAAAATGTAATTTTGGAA
23838013 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* * *
23838043 AAGTTTCGGAGTCAAAATATAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
23838073 AAGTTTTGGGGTCAAAAGGTAATTT
1 AAGTTTTGGGGTCAAAATGTAATTT
23838098 CTAGACAATT
Statistics
Matches: 341, Mismatches: 38, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
29 21 0.06
30 317 0.93
31 3 0.01
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.36
Consensus pattern (30 bp):
AAGTTTTGGGGTCAAAATGTAATTTTGGAA
Found at i:23839776 original size:16 final size:16
Alignment explanation
Indices: 23839755--23839785 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23839745 CAGGGCATGG
23839755 TGGAGCAGGTGGTGGA
1 TGGAGCAGGTGGTGGA
*
23839771 TGGAGCTGGTGGTGG
1 TGGAGCAGGTGGTGG
23839786 CAGCAGCGCG
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:0.13, C:0.06, G:0.58, T:0.23
Consensus pattern (16 bp):
TGGAGCAGGTGGTGGA
Found at i:23839990 original size:6 final size:6
Alignment explanation
Indices: 23839970--23840102 Score: 109
Period size: 6 Copynumber: 22.8 Consensus size: 6
23839960 TTTTTTAATG
* * ** * *
23839970 TTAAAT TTGATAT TTTAAT TTTTAT TTAAAT TTAAAT TCAAA- GTAAAT
1 TTAAAT TT-AAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
23840018 TTAAAT AATTAAAT TTAAAT TTAAA- ATAAAT TTAAAT TTAAA- -TAAAT
1 TTAAAT --TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* *
23840065 TTAAAA TTAAA- ATAAAT TTAAAT TTAAA- -TAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
23840103 ATCAATTTAA
Statistics
Matches: 102, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
4 8 0.08
5 11 0.11
6 72 0.71
7 5 0.05
8 6 0.06
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.45
Consensus pattern (6 bp):
TTAAAT
Found at i:23840069 original size:33 final size:33
Alignment explanation
Indices: 23839996--23840102 Score: 164
Period size: 33 Copynumber: 3.3 Consensus size: 33
23839986 AATTTTTATT
* * *
23839996 TAAATTTAAATTCAAAGTAAATTTAAA--TAAT
1 TAAATTTAAATTTAAAATAAATTTAAATTTAAA
23840027 TAAATTTAAATTTAAAATAAATTTAAATTTAAA
1 TAAATTTAAATTTAAAATAAATTTAAATTTAAA
*
23840060 TAAATTTAAAATTAAAATAAATTTAAATTTAAA
1 TAAATTTAAATTTAAAATAAATTTAAATTTAAA
23840093 TAAATTTAAA
1 TAAATTTAAA
23840103 ATCAATTTAA
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
31 25 0.36
33 45 0.64
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (33 bp):
TAAATTTAAATTTAAAATAAATTTAAATTTAAA
Found at i:23840104 original size:17 final size:16
Alignment explanation
Indices: 23839996--23840102 Score: 146
Period size: 17 Copynumber: 6.6 Consensus size: 16
23839986 AATTTTTATT
*
23839996 TAAATTTAAATTCAAA
1 TAAATTTAAATTTAAA
*
23840012 GTAAATTTAAA--TAAT
1 -TAAATTTAAATTTAAA
23840027 TAAATTTAAATTTAAAA
1 TAAATTTAAATTT-AAA
23840044 TAAATTTAAATTTAAA
1 TAAATTTAAATTTAAA
*
23840060 TAAATTTAAAATTAAAA
1 TAAATTT-AAATTTAAA
23840077 TAAATTTAAATTTAAA
1 TAAATTTAAATTTAAA
23840093 TAAATTTAAA
1 TAAATTTAAA
23840103 ATCAATTTAA
Statistics
Matches: 81, Mismatches: 5, Indels: 9
0.85 0.05 0.09
Matches are distributed among these distances:
14 10 0.12
15 2 0.02
16 29 0.36
17 40 0.49
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (16 bp):
TAAATTTAAATTTAAA
Found at i:23840541 original size:68 final size:68
Alignment explanation
Indices: 23840432--23841385 Score: 1391
Period size: 68 Copynumber: 14.0 Consensus size: 68
23840422 ACTTCAATTT
** * *
23840432 TTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACATTGCTCT
1 TTCAATTTCAGAGATAAAGACGTGTTATCCTTTCTACTTCAATTTCAAGAGGACGACATTGCTCT
23840497 TAC
66 TAC
* * *
23840500 TTCAATTTCAGAGATGAAGACATGTTATCCTTTCTACTTCAATTTCAAGAGGACGACGTTGCTCT
1 TTCAATTTCAGAGATAAAGACGTGTTATCCTTTCTACTTCAATTTCAAGAGGACGACATTGCTCT
23840565 TAC
66 TAC
* * *
23840568 TTCAATTTCAGAGATAAAGACGTGTTATCCACTT-TACTTCAATTTCAAGGGGATGACATTGCTC
1 TTCAATTTCAGAGATAAAGACGTGTTATCC-TTTCTACTTCAATTTCAAGAGGACGACATTGCTC
23840632 TTAC
65 TTAC
*
23840636 TTCAATTTCAGAGATAAAGACGTGTTATCCTTTCTACTTCAATTTCAAGAGGACGACGTTGCTCT
1 TTCAATTTCAGAGATAAAGACGTGTTATCCTTTCTACTTCAATTTCAAGAGGACGACATTGCTCT
23840701 TAC
66 TAC
* * * *
23840704 TTCAATTTCAGAGATAAAGGCGTGTTATCCACTT-TACTTCAATTTCAAGGGGATGACATTGCTC
1 TTCAATTTCAGAGATAAAGACGTGTTATCC-TTTCTACTTCAATTTCAAGAGGACGACATTGCTC
23840768 TTAC
65 TTAC
* * *
23840772 TTCAATTTCAGAGATGAAGACGCGTTATCCTTTCTACTTCAATTTCAAGAGGACGACGTTGCTCT
1 TTCAATTTCAGAGATAAAGACGTGTTATCCTTTCTACTTCAATTTCAAGAGGACGACATTGCTCT
23840837 TAC
66 TAC
* * * * *
23840840 TTCAATTTCAGAGATAAAGGCGTGTTATCCACTT-TACTTCAATTTCAAGGGGATGACATTGCCC
1 TTCAATTTCAGAGATAAAGACGTGTTATCC-TTTCTACTTCAATTTCAAGAGGACGACATTGCTC
23840904 TTAC
65 TTAC
* * *
23840908 TTCAATTTCAGAGATGAAGACGCGTTATCCTTTCTACTTCAATTTCAAGAGGACGACGTTGCTCT
1 TTCAATTTCAGAGATAAAGACGTGTTATCCTTTCTACTTCAATTTCAAGAGGACGACATTGCTCT
23840973 TAC
66 TAC
*
23840976 TTCAATTTCAGAGATAAAGACGTGTTATCCTTTCTACTTCAATTTCAAGAGGACGACGTTGCTCT
1 TTCAATTTCAGAGATAAAGACGTGTTATCCTTTCTACTTCAATTTCAAGAGGACGACATTGCTCT
23841041 TAC
66 TAC
* * * *
23841044 TTCAATTTCAGAGATAAAGACGTGTTATCCACTT-TACTTAAATTTCAAGGGGATGACATTGCTC
1 TTCAATTTCAGAGATAAAGACGTGTTATCC-TTTCTACTTCAATTTCAAGAGGACGACATTGCTC
23841108 TTAC
65 TTAC
* * *
23841112 TTCAATTTCAGAGATGAAGACGCGTTATCCTTTCTACTTCAATTTCAAGAGGACGACGTTGCTCT
1 TTCAATTTCAGAGATAAAGACGTGTTATCCTTTCTACTTCAATTTCAAGAGGACGACATTGCTCT
23841177 TAC
66 TAC
* * *
23841180 TTCAATTTCAGAGATAAAGGCGTGTTATCCACTT-TACTTCAATTTCAATG-GGATGACATTGCT
1 TTCAATTTCAGAGATAAAGACGTGTTATCC-TTTCTACTTCAATTTCAA-GAGGACGACATTGCT
23841243 CTTAC
64 CTTAC
* * * *
23841248 TTCAATTTCAGAGATGAAGACGCGTTATCCTTTCTACTTCAATTTTAAGAGGACGACGTTGCTCT
1 TTCAATTTCAGAGATAAAGACGTGTTATCCTTTCTACTTCAATTTCAAGAGGACGACATTGCTCT
23841313 TAC
66 TAC
* * * *
23841316 TTCAATTTCAGAGATAAAGGCGTGTTATCCACTT-TACTTCAATTTCAAGGGGATGACATTGCTC
1 TTCAATTTCAGAGATAAAGACGTGTTATCC-TTTCTACTTCAATTTCAAGAGGACGACATTGCTC
23841380 TTAC
65 TTAC
23841384 TT
1 TT
23841386 GGTCTGATTC
Statistics
Matches: 793, Mismatches: 80, Indels: 26
0.88 0.09 0.03
Matches are distributed among these distances:
67 11 0.01
68 769 0.97
69 13 0.02
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (68 bp):
TTCAATTTCAGAGATAAAGACGTGTTATCCTTTCTACTTCAATTTCAAGAGGACGACATTGCTCT
TAC
Found at i:23853281 original size:30 final size:30
Alignment explanation
Indices: 23853219--23853637 Score: 538
Period size: 30 Copynumber: 14.0 Consensus size: 30
23853209 AGATTTAGGG
* *
23853219 AAGTTTAGGGGT-AAAATAGTAATTTTTG-A
1 AAGTTTTGGGGTCAAAAT-GTAATTTTGGAA
* * *
23853248 AAGTTTCGGGGTCAAAATATACTTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
23853278 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* *
23853308 AAGTTTTAGGGTTAAAATGTAATTTTAGG-A
1 AAGTTTTGGGGTCAAAATGTAATTTT-GGAA
* *
23853338 AAGTTTTAGGGTCAAAATGTAATTTTGGTA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* *
23853368 AAGTTTCGGGGTCAAAATATAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* *
23853398 AAGTTTTAGGGTCAAAATGTAATTTAGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
23853428 AAGTTTTGGGGTCAAAATATAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* *
23853458 ATGTTTTGGGGTTAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* *
23853488 AAGTTTTGGGGTCAAAATGTAATTTAGGAT
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* *
23853518 AAGTTTTAGGGTCAAAATGTAATTTAGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
23853548 AAGTTTTGGGGTCAAAATGTAATTTTGGTA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
** * *
23853578 AAGTTTCAGAGTCAAAATATAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* * *
23853608 AAGTTTTAGGGTTAAAAGGTAATTTCTGGA
1 AAGTTTTGGGGTCAAAATGTAATTT-TGGA
23853638 CAATTTAGGG
Statistics
Matches: 342, Mismatches: 43, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
29 20 0.06
30 316 0.92
31 6 0.02
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.37
Consensus pattern (30 bp):
AAGTTTTGGGGTCAAAATGTAATTTTGGAA
Found at i:23855312 original size:16 final size:16
Alignment explanation
Indices: 23855291--23855321 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23855281 CAGGGCATGG
23855291 TGGAGCAGGTGGTGGA
1 TGGAGCAGGTGGTGGA
*
23855307 TGGAGCTGGTGGTGG
1 TGGAGCAGGTGGTGG
23855322 CAGCAGCACG
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:0.13, C:0.06, G:0.58, T:0.23
Consensus pattern (16 bp):
TGGAGCAGGTGGTGGA
Found at i:23855543 original size:7 final size:6
Alignment explanation
Indices: 23855506--23855605 Score: 73
Period size: 6 Copynumber: 16.8 Consensus size: 6
23855496 TTTTTTAATG
* * ** * * *
23855506 TTAAAT TTGATAT TTTAAT TTTTAT TTAAAT TTAAAA TCAAA- GTAAAT
1 TTAAAT TT-AAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
23855554 TTAAAT AATTAAAT TTAAAT TTAAA- ATAAAT TTAAAT TTAAA- -TAAAT
1 TTAAAT --TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
23855601 TTAAA
1 TTAAA
23855606 ATCAATTTAA
Statistics
Matches: 74, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
4 4 0.05
5 7 0.09
6 52 0.70
7 5 0.07
8 6 0.08
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (6 bp):
TTAAAT
Found at i:23855552 original size:17 final size:16
Alignment explanation
Indices: 23855532--23855610 Score: 81
Period size: 16 Copynumber: 4.9 Consensus size: 16
23855522 AATTTTTATT
23855532 TAAATTTAAAATCAAA
1 TAAATTTAAAATCAAA
*
23855548 GTAAATTT-AAAT-AAT
1 -TAAATTTAAAATCAAA
* *
23855563 TAAATTTAAATTTAAAA
1 TAAATTTAAA-ATCAAA
* *
23855580 TAAATTTAAATTTAAA
1 TAAATTTAAAATCAAA
23855596 TAAATTTAAAATCAA
1 TAAATTTAAAATCAA
23855611 TTTAACTCTA
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
14 7 0.13
15 4 0.08
16 23 0.43
17 19 0.36
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (16 bp):
TAAATTTAAAATCAAA
Found at i:23855622 original size:27 final size:27
Alignment explanation
Indices: 23855569--23855626 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
23855559 TAATTAAATT
*
23855569 TAAATTTAAAATAAATTTAAATTTAAA
1 TAAATTTAAAATAAATTTAAATCTAAA
* *
23855596 TAAATTTAAAATCAATTTAACTCTAAA
1 TAAATTTAAAATAAATTTAAATCTAAA
23855623 TAAA
1 TAAA
23855627 AAAATTTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (27 bp):
TAAATTTAAAATAAATTTAAATCTAAA
Found at i:23856287 original size:28 final size:28
Alignment explanation
Indices: 23856220--23856277 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
23856210 GTAAAAACAA
* *
23856220 AACATAAAGAACTAAAATATAAATTAAAT
1 AACATAAAAAAC-GAAATATAAATTAAAT
*
23856249 AACTTAAAAAACGAAATATAAATTAAAT
1 AACATAAAAAACGAAATATAAATTAAAT
23856277 A
1 A
23856278 TGATAGAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.66, C:0.07, G:0.03, T:0.24
Consensus pattern (28 bp):
AACATAAAAAACGAAATATAAATTAAAT
Found at i:23856477 original size:24 final size:25
Alignment explanation
Indices: 23856447--23856508 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
23856437 TTGAAACTAC
*
23856447 AATAAAAT-TAAAGGCAT-AAATTAA
1 AATAAAATAAAAAGG-ATCAAATTAA
23856471 AATAAAATAAAAAGGATCAAATTAA
1 AATAAAATAAAAAGGATCAAATTAA
*
23856496 AATAAAATGAAAA
1 AATAAAATAAAAA
23856509 TTATAGGGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
24 10 0.29
25 24 0.71
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.21
Consensus pattern (25 bp):
AATAAAATAAAAAGGATCAAATTAA
Found at i:23859331 original size:16 final size:17
Alignment explanation
Indices: 23859298--23859333 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
23859288 AATTAGGTCA
*
23859298 TTTTTAATTATTATATT
1 TTTTTAATTATTAAATT
23859315 TTTTTAATT-TTAAATT
1 TTTTTAATTATTAAATT
23859331 TTT
1 TTT
23859334 AGTTCTCACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTTAATTATTAAATT
Found at i:23860257 original size:23 final size:25
Alignment explanation
Indices: 23860230--23860283 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
23860220 TGACCCAATC
*
23860230 AAGACCC-ATGTGAGCCC-AAACCT
1 AAGACCCTATGTGAGCCCAAAACCA
* *
23860253 AAGACCCTATTTGTGCCCAAAACCA
1 AAGACCCTATGTGAGCCCAAAACCA
23860278 AAGACC
1 AAGACC
23860284 TACATTGAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 7 0.27
24 8 0.31
25 11 0.42
ACGTcount: A:0.37, C:0.33, G:0.15, T:0.15
Consensus pattern (25 bp):
AAGACCCTATGTGAGCCCAAAACCA
Found at i:23860433 original size:13 final size:13
Alignment explanation
Indices: 23860412--23860446 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
23860402 ACCCGACCTG
23860412 TTGACCTTTGACTA
1 TTGA-CTTTGACTA
*
23860426 TTGACTTTGACTT
1 TTGACTTTGACTA
23860439 TTGACTTT
1 TTGACTTT
23860447 TTTTAACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.51
Consensus pattern (13 bp):
TTGACTTTGACTA
Found at i:23863565 original size:314 final size:314
Alignment explanation
Indices: 23862967--23863657 Score: 842
Period size: 314 Copynumber: 2.2 Consensus size: 314
23862957 CAACGGTTTT
*
23862967 CTAATAGAGCAGCTTTATGCTTATTCGATAATTGTGGCATTGCCGGCGTTGTGCAGTTAGTTTGT
1 CTAATAGGGCAGCTTTATGCTTATTCGATAATTGTGGCATTGCCGGCGTTGTGCAGTTAG--TGT
* * * **
23863032 TACATTTTATTAAAGAGAGAACATATATTCAGTAATGGAGTCCTTCTGTGGTGGGGGAAGGGCAA
64 TACATTTTATTAAAGAAAGAACATATAATCAGTAATGAAGTCCTTCCATGGTGGGGGAAGGGCAA
* * * *
23863097 GGGCAGTCTACTCGTTGTCGGGTTGCAATAAGAAATGGAAACTAGTCATTGGAGGGAACACAAGG
129 GGGCAGTCTACTCCTTGTCGGGTTGAAACAAGAAATGGAAACTAGTCATTGGAGGGAACACAAGA
* *
23863162 CTCGAGGAGAGAGCCCTGCATAAGAGCCTTACTCTATAGGGTCATTAGCGTGCTACAGCTAGCAC
194 CTCGAGGAGAGAGCCCTGCATAAGAGCCTTACTCTATAGGGACATTAGCGTGCTACAACTAGCAC
* *
23863227 TTTGAAGCCCGCTGAAAAACTGATGC-GCTCTACTAGCGCGCAATGGTTTTGAAGCTTTG
259 TTTGAAGCCAGCTGAAAAACTGATGCTGC-C-ACTAGCGCGC--TGGTTTTCAAGCTTTG
* * * * * *
23863286 CTGATAGGGCAGCTTTATGCTTATTCAATAATTGTGGTATTGCTGG-GATT-TTCTATTTAG-GT
1 CTAATAGGGCAGCTTTATGCTTATTCGATAATTGTGGCATTGCCGGCG-TTGTGC-AGTTAGTGT
*
23863348 TACATTTTATTAAAGAAAGAACATATAATCATTAATGAAGTCCTTCCATGGTGGGGGAAGGGCAA
64 TACATTTTATTAAAGAAAGAACATATAATCAGTAATGAAGTCCTTCCATGGTGGGGGAAGGGCAA
* ** *
23863413 GGGCAG-C-A-TCCTTGTTGGGTTGAAACAAGAAATGGAAACTAGTTGTTGGAGGGAACACGAGA
129 GGGCAGTCTACTCCTTGTCGGGTTGAAACAAGAAATGGAAACTAGTCATTGGAGGGAACACAAGA
* * * * * * *
23863475 CTTGTGGA-ATGTGGTTCC-GCATAAGAGCCTTACTCTATGGGGACGTTAGTGTGCTACAACTAG
194 CTCGAGGAGA-G-AG-CCCTGCATAAGAGCCTTACTCTATAGGGACATTAGCGTGCTACAACTAG
* * *
23863538 CACTTTGAAGCCAGCTGAAAAACTGATGCTTGCCATTGGTGCGCTGGTTTTCAAGCTTTG
256 CACTTTGAAGCCAGCTGAAAAACTGATGC-TGCCACTAGCGCGCTGGTTTTCAAGCTTTG
* * * * * *
23863598 CTAATAGGGTAGCTTTATGCTTATTTGATAATTGTGCCATTGCCAGCATTGTCCAGTTAG
1 CTAATAGGGCAGCTTTATGCTTATTCGATAATTGTGGCATTGCCGGCGTTGTGCAGTTAG
23863658 ACTGTTATTA
Statistics
Matches: 317, Mismatches: 46, Indels: 25
0.82 0.12 0.06
Matches are distributed among these distances:
312 61 0.19
313 55 0.17
314 77 0.24
315 4 0.01
316 69 0.22
318 3 0.01
319 48 0.15
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (314 bp):
CTAATAGGGCAGCTTTATGCTTATTCGATAATTGTGGCATTGCCGGCGTTGTGCAGTTAGTGTTA
CATTTTATTAAAGAAAGAACATATAATCAGTAATGAAGTCCTTCCATGGTGGGGGAAGGGCAAGG
GCAGTCTACTCCTTGTCGGGTTGAAACAAGAAATGGAAACTAGTCATTGGAGGGAACACAAGACT
CGAGGAGAGAGCCCTGCATAAGAGCCTTACTCTATAGGGACATTAGCGTGCTACAACTAGCACTT
TGAAGCCAGCTGAAAAACTGATGCTGCCACTAGCGCGCTGGTTTTCAAGCTTTG
Done.