Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr10
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: 21822658
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 1067834 characters in sequence are not A, C, G, or T
File 36 of 59
Found at i:13113903 original size:43 final size:43
Alignment explanation
Indices: 13113820--13113903 Score: 98
Period size: 43 Copynumber: 2.0 Consensus size: 43
13113810 TTATTTCAAA
* * * * *
13113820 AATTCTTTTTAAGTTATGGAGGTTCTTAGGAGGAGTATTTTTC
1 AATTCTTTTAAAGTTATGGAGCTTATTAGGAAGAGAATTTTTC
*
13113863 AATTCTTTTAAAGTTGTGGAGCCTTATTA-GAAGAGAATTTT
1 AATTCTTTTAAAGTTATGGAG-CTTATTAGGAAGAGAATTTT
13113904 CATTTTTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
43 29 0.85
44 5 0.15
ACGTcount: A:0.27, C:0.07, G:0.21, T:0.44
Consensus pattern (43 bp):
AATTCTTTTAAAGTTATGGAGCTTATTAGGAAGAGAATTTTTC
Found at i:13114184 original size:19 final size:18
Alignment explanation
Indices: 13114143--13114208 Score: 62
Period size: 19 Copynumber: 3.6 Consensus size: 18
13114133 CAAGAAATTT
* *
13114143 AAAATACAAAATATAAAA
1 AAAATACAAAAAATTAAA
13114161 GAAAATACAAAAAATTAAGA
1 -AAAATACAAAAAATTAA-A
* **
13114181 AAAATATAAAACTTTAAA
1 AAAATACAAAAAATTAAA
13114199 AAAATA-AAAA
1 AAAATACAAAA
13114209 TAAAGGAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
17 4 0.10
18 7 0.17
19 29 0.71
20 1 0.02
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (18 bp):
AAAATACAAAAAATTAAA
Found at i:13114191 original size:18 final size:17
Alignment explanation
Indices: 13114170--13114225 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
13114160 AGAAAATACA
13114170 AAAAATTAAGAAAAATAT
1 AAAAATTAAGAAAAA-AT
* *
13114188 AAAACTTTA-AAAAAAT
1 AAAAATTAAGAAAAAAT
* *
13114204 AAAAATAAAGGAAAAAT
1 AAAAATTAAGAAAAAAT
13114221 AAAAA
1 AAAAA
13114226 GAATACAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
16 8 0.26
17 16 0.52
18 7 0.23
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (17 bp):
AAAAATTAAGAAAAAAT
Found at i:13117122 original size:20 final size:20
Alignment explanation
Indices: 13117085--13117122 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13117075 ACAACAATTC
* *
13117085 TATCGATACATTCTAGAATG
1 TATCGATACATGCAAGAATG
13117105 TATCGATACATGCAAGAA
1 TATCGATACATGCAAGAA
13117123 ATCTATCTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (20 bp):
TATCGATACATGCAAGAATG
Found at i:13118896 original size:137 final size:135
Alignment explanation
Indices: 13118651--13118922 Score: 517
Period size: 137 Copynumber: 2.0 Consensus size: 135
13118641 TGGAATTTTG
*
13118651 GAATTTTACACCACTTAACACTTGTCATGCCCATGGATTCAGCCATTAACATTTTACATTGTGGA
1 GAATTTTACACCACCTAACACTTGTCATGCCCATGGATTCAGCCATTAACATTTTACATTGTGGA
13118716 TAATTGAAACATTTTATGTGGTGGAGAGAGATTGCTTAATGGATAAGTATTACACATGGACCAAT
66 TAATTGAAACATTTTATGTGGTGGAGAGAGATTGCTTAATGGATAAGTATTACACATGGACCAAT
13118781 GGAAA
131 GGAAA
13118786 NGAATTTTACACCACCTAACACTTGTCATGCCCATGGATTTCAGCCATTAACATTTTACATTGTG
1 -GAATTTTACACCACCTAACACTTGTCATGCCCATGGA-TTCAGCCATTAACATTTTACATTGTG
13118851 GATAATTGAAACATTTTATGTGGTGGAGAGAGATTGCTTAATGGATAAGTATTACACATGGACCA
64 GATAATTGAAACATTTTATGTGGTGGAGAGAGATTGCTTAATGGATAAGTATTACACATGGACCA
13118916 ATGGAAA
129 ATGGAAA
13118923 CATGCCATGT
Statistics
Matches: 134, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
136 36 0.27
137 98 0.73
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (135 bp):
GAATTTTACACCACCTAACACTTGTCATGCCCATGGATTCAGCCATTAACATTTTACATTGTGGA
TAATTGAAACATTTTATGTGGTGGAGAGAGATTGCTTAATGGATAAGTATTACACATGGACCAAT
GGAAA
Found at i:13122046 original size:330 final size:329
Alignment explanation
Indices: 13121444--13122103 Score: 1311
Period size: 330 Copynumber: 2.0 Consensus size: 329
13121434 AAGTTAGATT
13121444 AGATTTTGTTAGATAGATACATCTGCATATAGAAACCTACCTGTTCTTGTGGGATATAAATGATC
1 AGATTTTGTTAGATAGATACATCTGCATATAGAAACCTACCTGTTCTTGTGGGATATAAATGATC
13121509 AAGAAATTACCATTTGGTTACGTATAGGTTATGGTGCGCGGATTGCACGTACTATGCCTAGGAGA
66 AAGAAATTACCATTTGGTTACGTATAGGTTATGGTGCGCGGATTGCACGTACTATGCCTAGGAGA
13121574 GACAGTGATTTCGATTCCTCACATTGTACTAGTGAGGGATCAATAGATTCCACTGCTGAAATCCG
131 GACAGTGATTTCGATTCCTCACATTGTACTAGTGAGGGATCAATAGATTCCACTGCTGAAATCCG
13121639 ATATCATTCTGAACCCAGTAATCTAGAAAGATATTCGTTTAGAGTTCCTATTAATTGGACTCCAT
196 ATATCATTCTGAACCCAGTAATCTAGAAAGATATTCGTTTAGAGTTCCTATTAATTGGACTCCAT
13121704 CGGATTTGGGAGCGAAGGTTCGGATAAAGGAAAGCACTAGTACTAGTGAGACTTATGAAAGTGTT
261 CGGATTTGGGAGCGAAGGTTCGGATAAAGGAAAGCACTAGTACTAGTGAGACTTATGAAAGTGTT
13121769 GATA
326 GATA
13121773 ANGATTTTGTTAGATAGATACATCTGCATATAGAAACCTACCTGTTCTTGTGGGATATAAATGAT
1 A-GATTTTGTTAGATAGATACATCTGCATATAGAAACCTACCTGTTCTTGTGGGATATAAATGAT
13121838 CAAGAAATTACCATTTGGTTACGTATAGGTTATGGTGCGCGGATTGCACGTACTATGCCTAGGAG
65 CAAGAAATTACCATTTGGTTACGTATAGGTTATGGTGCGCGGATTGCACGTACTATGCCTAGGAG
13121903 AGACAGTGATTTCGATTCCTCACATTGTACTAGTGAGGGATCAATAGATTCCACTGCTGAAATCC
130 AGACAGTGATTTCGATTCCTCACATTGTACTAGTGAGGGATCAATAGATTCCACTGCTGAAATCC
13121968 GATATCATTCTGAACCCAGTAATCTAGAAAGATATTCGTTTAGAGTTCCTATTAATTGGACTCCA
195 GATATCATTCTGAACCCAGTAATCTAGAAAGATATTCGTTTAGAGTTCCTATTAATTGGACTCCA
13122033 TCGGATTTGGGAGCGAAGGTTCGGATAAAGGAAAGCACTAGTACTAGTGAGACTTATGAAAGTGT
260 TCGGATTTGGGAGCGAAGGTTCGGATAAAGGAAAGCACTAGTACTAGTGAGACTTATGAAAGTGT
13122098 TGATA
325 TGATA
13122103 A
1 A
13122104 TAACGACGTT
Statistics
Matches: 330, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
329 1 0.00
330 329 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (329 bp):
AGATTTTGTTAGATAGATACATCTGCATATAGAAACCTACCTGTTCTTGTGGGATATAAATGATC
AAGAAATTACCATTTGGTTACGTATAGGTTATGGTGCGCGGATTGCACGTACTATGCCTAGGAGA
GACAGTGATTTCGATTCCTCACATTGTACTAGTGAGGGATCAATAGATTCCACTGCTGAAATCCG
ATATCATTCTGAACCCAGTAATCTAGAAAGATATTCGTTTAGAGTTCCTATTAATTGGACTCCAT
CGGATTTGGGAGCGAAGGTTCGGATAAAGGAAAGCACTAGTACTAGTGAGACTTATGAAAGTGTT
GATA
Found at i:13125709 original size:43 final size:43
Alignment explanation
Indices: 13125639--13125757 Score: 177
Period size: 43 Copynumber: 2.8 Consensus size: 43
13125629 GTAATTATGT
* *
13125639 TGACTCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCG-GTGA
*
13125682 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
* *
13125725 TGACCCAGCCATGTGCGAGTAGGGAGTGCGCAT
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCAT
13125758 GAGCTGGTGA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 68 0.99
ACGTcount: A:0.22, C:0.21, G:0.38, T:0.19
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
Found at i:13125767 original size:43 final size:43
Alignment explanation
Indices: 13125649--13125770 Score: 174
Period size: 43 Copynumber: 2.8 Consensus size: 43
13125639 TGACTCGGCT
* **
13125649 ATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GATGACCCGGTT
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCG-GTGATGACCCAGCC
*
13125692 ATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCCAGCC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
* *
13125735 ATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGA
13125771 TGATGATGAG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
42 1 0.01
43 70 0.99
ACGTcount: A:0.23, C:0.19, G:0.39, T:0.19
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
Found at i:13125781 original size:20 final size:20
Alignment explanation
Indices: 13125756--13125818 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
13125746 GGGAGTGCGC
13125756 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
13125776 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
* *
13125796 ATGGGTTGGTGA-GATGATG
1 ATGAGCTGGTGATGATGATG
13125815 ATGA
1 ATGA
13125819 TGGGTATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.25, C:0.03, G:0.41, T:0.30
Consensus pattern (20 bp):
ATGAGCTGGTGATGATGATG
Found at i:13135824 original size:62 final size:62
Alignment explanation
Indices: 13135644--13135915 Score: 294
Period size: 62 Copynumber: 4.3 Consensus size: 62
13135634 GTTTCTTGTT
* * * * * *
13135644 GCGGCGAGAATCAAATTTGGTTACGACGAGAACAGT-GACTCCCTAAGGTAGAAAGTTGCTCGCC
1 GCGGCGAAAATC-AATTTGGCTACGACGAGAACAGTAG-CT-CCTAAGGCAAAAAGTTTCTCACC
* * *
13135708 GCGGCGAAAAATCAATTTGGCTACAACGAGAACAGTAACTTCTAAGGCAAAAAGTTTCTCACC
1 GCGGCG-AAAATCAATTTGGCTACGACGAGAACAGTAGCTCCTAAGGCAAAAAGTTTCTCACC
* * * * * * * * *
13135771 GCTGCGAAAATCAATTTGGATGCGACGAAAATAGTAGCTCCTCAGGTAGAAAGTTTCTCATC
1 GCGGCGAAAATCAATTTGGCTACGACGAGAACAGTAGCTCCTAAGGCAAAAAGTTTCTCACC
* ***
13135833 GCGGCGAAAATCAATTTGGCTACGATGAGAACAGTAGCTCCTAAGGCAAAAAGTTTCTCGTT
1 GCGGCGAAAATCAATTTGGCTACGACGAGAACAGTAGCTCCTAAGGCAAAAAGTTTCTCACC
*
13135895 GCGGTGAAAATCAATTTGGCT
1 GCGGCGAAAATCAATTTGGCT
13135916 GCAGTGAAAG
Statistics
Matches: 173, Mismatches: 33, Indels: 6
0.82 0.16 0.03
Matches are distributed among these distances:
62 116 0.67
63 23 0.13
64 29 0.17
65 5 0.03
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (62 bp):
GCGGCGAAAATCAATTTGGCTACGACGAGAACAGTAGCTCCTAAGGCAAAAAGTTTCTCACC
Found at i:13135910 original size:124 final size:126
Alignment explanation
Indices: 13135633--13135913 Score: 352
Period size: 124 Copynumber: 2.2 Consensus size: 126
13135623 CAAGACAGAG
* * * *
13135633 AGTTTCTTGTTGCGGCGAGAATCAAATTTGGTTACGACGAGAACAGTGACTCCCTAAGGTAGAAA
1 AGTTTCTCGTTGCGGCGAAAATC-AATTTGGATACGACGAAAACAGTGACTCCCTAAGGTAGAAA
* *
13135698 GTTGCTCGCCGCGGCGAAAAATCAATTTGGCTACAACGAGAACAGTAACTTCTAAGGCAAAA
65 GTTGCTCACCGCGGCGAAAAATCAATTTGGCTACAACGAGAACAGTAACTCCTAAGGCAAAA
*** * * * *
13135760 AGTTTCTCACCGCTGCGAAAATCAATTTGGATGCGACGAAAATAGT-AGCT-CCTCAGGTAGAAA
1 AGTTTCTCGTTGCGGCGAAAATCAATTTGGATACGACGAAAACAGTGA-CTCCCTAAGGTAGAAA
* * * * *
13135823 GTTTCTCATCGCGGCG-AAAATCAATTTGGCTACGATGAGAACAGTAGCTCCTAAGGCAAAA
65 GTTGCTCACCGCGGCGAAAAATCAATTTGGCTACAACGAGAACAGTAACTCCTAAGGCAAAA
*
13135884 AGTTTCTCGTTGCGGTGAAAATCAATTTGG
1 AGTTTCTCGTTGCGGCGAAAATCAATTTGG
13135914 CTGCAGTGAA
Statistics
Matches: 130, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
124 66 0.51
125 26 0.20
126 21 0.16
127 17 0.13
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.25
Consensus pattern (126 bp):
AGTTTCTCGTTGCGGCGAAAATCAATTTGGATACGACGAAAACAGTGACTCCCTAAGGTAGAAAG
TTGCTCACCGCGGCGAAAAATCAATTTGGCTACAACGAGAACAGTAACTCCTAAGGCAAAA
Found at i:13147219 original size:27 final size:27
Alignment explanation
Indices: 13147161--13147210 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
13147151 TTTTTTTAAG
*
13147161 AAATATT--TAATTTATAATTTAATTA
1 AAATATTAATAATTGATAATTTAATTA
13147186 AAATATTAATAATTGATAATTTAAT
1 AAATATTAATAATTGATAATTTAAT
13147211 ATTAATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 7 0.32
27 15 0.68
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (27 bp):
AAATATTAATAATTGATAATTTAATTA
Found at i:13147342 original size:27 final size:26
Alignment explanation
Indices: 13147300--13147356 Score: 89
Period size: 27 Copynumber: 2.2 Consensus size: 26
13147290 ATTTTATTTT
*
13147300 ATTT-TTTAAATTTTAATAATTGATA
1 ATTTATTTAAATATTAATAATTGATA
13147325 ATTTATTTAAAATATTAATAATTGATA
1 ATTTATTT-AAATATTAATAATTGATA
13147352 ATTTA
1 ATTTA
13147357 AATATTAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 4 0.14
26 3 0.10
27 22 0.76
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (26 bp):
ATTTATTTAAATATTAATAATTGATA
Found at i:13147372 original size:42 final size:39
Alignment explanation
Indices: 13147305--13147572 Score: 138
Period size: 42 Copynumber: 6.7 Consensus size: 39
13147295 ATTTTATTTT
* * * * *
13147305 TTAAATTTTAATAATTGATAATTTATTTAAAATATTAATAA
1 TTAAATTTAAAT-ATTAATATTTTATTTATAAT-TTAAAAA
13147346 TTGATAATTTAAATATTAATATTTTATTTATAATTTAAAAA
1 TT-A-AATTTAAATATTAATATTTTATTTATAATTTAAAAA
* *
13147387 TTAACATTTAAAAATATGAATATTTTATTTATAATTTAAATA
1 TTAA-ATTT--AAATATTAATATTTTATTTATAATTTAAAAA
* * * * ***
13147429 TT--ATTGTGATTATT--TTTTTTATTT-T-ATTTTAGTT
1 TTAAATT-TAAATATTAATATTTTATTTATAATTTAAAAA
* * * * *
13147463 TTAAAAATT-AATAATTAATAATTTACTTAAAATATTAATAA
1 TT-AAATTTAAAT-ATTAATATTTTATTTATAAT-TTAAAAA
* **
13147504 TTAATAATTTACATATTAA-ATTTTATTTATAATTTAATCA
1 TT-A-AATTTAAATATTAATATTTTATTTATAATTTAAAAA
13147544 TTAATATTTTGAAATATTAATATTTTATT
1 TTAA-A-TTT-AAATATTAATATTTTATT
13147573 AGAAGTTGGA
Statistics
Matches: 175, Mismatches: 31, Indels: 41
0.71 0.13 0.17
Matches are distributed among these distances:
34 8 0.05
35 3 0.02
36 13 0.07
37 2 0.01
38 12 0.07
39 6 0.03
40 19 0.11
41 36 0.21
42 66 0.38
43 10 0.06
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (39 bp):
TTAAATTTAAATATTAATATTTTATTTATAATTTAAAAA
Found at i:13147430 original size:20 final size:20
Alignment explanation
Indices: 13147363--13147430 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
13147353 TTTAAATATT
13147363 AATATTTTATTTATAATTTA
1 AATATTTTATTTATAATTTA
* ** * * *
13147383 AAAATTAACATTTAAAAATATG
1 AATATT-TTATTT-ATAATTTA
13147405 AATATTTTATTTATAATTTA
1 AATATTTTATTTATAATTTA
13147425 AATATT
1 AATATT
13147431 ATTGTGATTA
Statistics
Matches: 34, Mismatches: 12, Indels: 4
0.68 0.24 0.08
Matches are distributed among these distances:
20 16 0.47
21 8 0.24
22 10 0.29
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (20 bp):
AATATTTTATTTATAATTTA
Found at i:13147478 original size:7 final size:7
Alignment explanation
Indices: 13147463--13147512 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
13147453 TATTTTAGTT
*
13147463 TTAAAAA
1 TTAATAA
13147470 TTAATAA
1 TTAATAA
13147477 TTAATAA
1 TTAATAA
*
13147484 TT--TAC
1 TTAATAA
*
13147489 TTAAAATA
1 TTAATA-A
13147497 TTAATAA
1 TTAATAA
13147504 TTAATAA
1 TTAATAA
13147511 TT
1 TT
13147513 TACATATTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
5 4 0.11
7 26 0.74
8 5 0.14
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (7 bp):
TTAATAA
Found at i:13147486 original size:158 final size:150
Alignment explanation
Indices: 13147141--13147572 Score: 487
Period size: 158 Copynumber: 2.8 Consensus size: 150
13147131 TACAAGATTA
* *
13147141 TTTATTATTATTTTTTTAAGAAA-TATTTAATTTATAATTTAATTAAAATATTAATAATTGATAA
1 TTTATT-TTA-TTTTTTAA-AAATTA-ATAATTAATAATTTAATTAAAATATTAATAATTGATAA
* ** *
13147205 TTT-AATATTAATATTTTATTT-TTATTTAATTCTTATAA-TTCAAATATTAATATTTTATTCAT
62 TTTAAATATTAATATTTTATTTATAATTTAATAATTA-AATTTAAAATATTAATATTTTATTCAT
* * *
13147267 AATTTAANTGTTTAGTTATTTTTAT
126 AATTTAAATATTTAGTGATTTTTAT
** * *
13147292 TTTATTTTATTTTTTAAATTTTAATAATTGATAATTTATTTAAAATATTAATAATTGATAATTTA
1 TTTATTTTATTTTTTAAAAATTAATAATTAATAATTTAATTAAAATATTAATAATTGATAATTTA
* * *
13147357 AATATTAATATTTTATTTATAATTTAAAAATTAACATTTAAAAATATGAATATTTTATTTATAAT
66 AATATTAATATTTTATTTATAATTTAATAATTAA-ATTT-AAAATATTAATATTTTATTCATAAT
* *
13147422 TTAAATATTATTGTGATTATTTTT
129 TTAAATATT-TAGTGATT-TTTAT
* *
13147446 TTTATTTTATTTTAGTTTTAAAAATTAATAATTAATAATTTACTTAAAATATTAATAATTAATAA
1 TTTATTTTA--TT--TTTTAAAAATTAATAATTAATAATTTAATTAAAATATTAATAATTGATAA
* * *
13147511 TTTACATATTAA-ATTTTATTTATAATTTAATCATTAATATTTTGAAATATTAATATTTTATT
62 TTTAAATATTAATATTTTATTTATAATTTAATAATTAA-A-TTTAAAATATTAATATTTTATT
13147573 AGAAGTTGGA
Statistics
Matches: 240, Mismatches: 28, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
148 39 0.16
149 29 0.12
150 14 0.06
151 8 0.03
152 29 0.12
153 6 0.03
154 13 0.05
156 2 0.01
157 41 0.17
158 59 0.25
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.55
Consensus pattern (150 bp):
TTTATTTTATTTTTTAAAAATTAATAATTAATAATTTAATTAAAATATTAATAATTGATAATTTA
AATATTAATATTTTATTTATAATTTAATAATTAAATTTAAAATATTAATATTTTATTCATAATTT
AAATATTTAGTGATTTTTAT
Found at i:13147501 original size:27 final size:26
Alignment explanation
Indices: 13147463--13147515 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 26
13147453 TATTTTAGTT
13147463 TTAAAAATTAATAATTAATAATTTAC
1 TTAAAAATTAATAATTAATAATTTAC
13147489 TTAAAATATTAATAATTAATAATTTAC
1 TTAAAA-ATTAATAATTAATAATTTAC
13147516 ATATTAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 6 0.23
27 20 0.77
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (26 bp):
TTAAAAATTAATAATTAATAATTTAC
Found at i:13156830 original size:31 final size:31
Alignment explanation
Indices: 13156795--13156983 Score: 225
Period size: 31 Copynumber: 5.9 Consensus size: 31
13156785 GATTACTTCC
**
13156795 TCCCTACATTCAACTTACTACATCAAGAGCA
1 TCCCTACATTCAACTTACTACATCAAGAGTG
*
13156826 TCCCTACATTCAGCTTACTACATCAAGAGTG
1 TCCCTACATTCAACTTACTACATCAAGAGTG
* *
13156857 TTTCCTCCCTATATTCAACTTACTTACATCAAAAGTG
1 -----TCCCTACATTCAACTTAC-TACATCAAGAGTG
* * * *
13156894 TCCCTACATTCAGCTTATTACATTAGGAGTG
1 TCCCTACATTCAACTTACTACATCAAGAGTG
* *
13156925 TCCCTACATTTAGCTTACTACATCAAGAGTG
1 TCCCTACATTCAACTTACTACATCAAGAGTG
13156956 TCCCTACATTCAACTTACTACATCAAGA
1 TCCCTACATTCAACTTACTACATCAAGA
13156984 ATGCTTCCTC
Statistics
Matches: 134, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
31 91 0.68
32 15 0.11
36 16 0.12
37 12 0.09
ACGTcount: A:0.31, C:0.28, G:0.10, T:0.32
Consensus pattern (31 bp):
TCCCTACATTCAACTTACTACATCAAGAGTG
Found at i:13163536 original size:77 final size:78
Alignment explanation
Indices: 13163404--13163572 Score: 223
Period size: 77 Copynumber: 2.1 Consensus size: 78
13163394 AATACCATCT
* *
13163404 ATTTTAATTTTGGGTGATCCATAAAAAAAAAAATAGGAAATTGTTTCCTACTTTAAAAGCAATTC
1 ATTTTAATTTTGGGTGATCCAT----AAAAAAATAGGAAATTATTTCCCACTTTAAAAGCAATTC
*
13163469 CTAAAATTAAGGATAGA
62 CTAAAATTAAAGATAGA
* * *
13163486 ATTTTAATTTTGGGTGATTCAT-AAAAAATAGGAAATTATTTCCCACTTTAAAAGGAGTTCCTAA
1 ATTTTAATTTTGGGTGATCCATAAAAAAATAGGAAATTATTTCCCACTTTAAAAGCAATTCCTAA
*
13163550 AATTAAAGATAGT
66 AATTAAAGATAGA
*
13163563 ATTTTGATTT
1 ATTTTAATTT
13163573 GGGAAATTCA
Statistics
Matches: 79, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
77 58 0.73
82 21 0.27
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.37
Consensus pattern (78 bp):
ATTTTAATTTTGGGTGATCCATAAAAAAATAGGAAATTATTTCCCACTTTAAAAGCAATTCCTAA
AATTAAAGATAGA
Found at i:13163869 original size:15 final size:15
Alignment explanation
Indices: 13163831--13163869 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
13163821 AGTTTTAATC
*
13163831 ATGGAAAGAATTAAA
1 ATGGAAAGTATTAAA
*
13163846 ATGGAAAGTCTTAAA
1 ATGGAAAGTATTAAA
13163861 ATGGAAAGT
1 ATGGAAAGT
13163870 TTTATTTCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.03, G:0.23, T:0.23
Consensus pattern (15 bp):
ATGGAAAGTATTAAA
Found at i:13168159 original size:19 final size:20
Alignment explanation
Indices: 13168135--13168172 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
13168125 CTATAAATAC
13168135 CTTGAA-TTTCCAGCAGCTT
1 CTTGAATTTTCCAGCAGCTT
13168154 CTTGAATTTTCCAGCAGCT
1 CTTGAATTTTCCAGCAGCT
13168173 GATCTTCTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.37
Consensus pattern (20 bp):
CTTGAATTTTCCAGCAGCTT
Found at i:13169027 original size:43 final size:43
Alignment explanation
Indices: 13168964--13169075 Score: 163
Period size: 43 Copynumber: 2.6 Consensus size: 43
13168954 TATTGACTCG
* *
13168964 GCTATGTGCTAGTAGGGAGTGCGCATAAGCCGAG-GATGACCCA
1 GCTATGTGCGAGTAGGGAGTGCGCATAA-CCCAGTGATGACCCA
* *
13169007 GTTATGTGCGAGTAGGGAGTGTGCATAACCCAGTGATGACCCA
1 GCTATGTGCGAGTAGGGAGTGCGCATAACCCAGTGATGACCCA
*
13169050 GCCATGTGCGAGTAGGGAGTGCGCAT
1 GCTATGTGCGAGTAGGGAGTGCGCAT
13169076 GAGCTGGTGA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 4 0.07
43 57 0.93
ACGTcount: A:0.24, C:0.20, G:0.36, T:0.21
Consensus pattern (43 bp):
GCTATGTGCGAGTAGGGAGTGCGCATAACCCAGTGATGACCCA
Found at i:13169086 original size:43 final size:43
Alignment explanation
Indices: 13168967--13169088 Score: 156
Period size: 43 Copynumber: 2.8 Consensus size: 43
13168957 TGACTCGGCT
* **
13168967 ATGTGCTAGTAGGGAGTGCGCATAAGCCGAG-GATGACCCAGTT
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCG-GTGATGACCCAGCC
* * *
13169010 ATGTGCGAGTAGGGAGTGTGCATAACCCAGTGATGACCCAGCC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
* *
13169053 ATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGA
13169089 TGATGATGGG
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
42 1 0.01
43 66 0.99
ACGTcount: A:0.25, C:0.18, G:0.37, T:0.20
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
Found at i:13169370 original size:19 final size:20
Alignment explanation
Indices: 13169329--13169371 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
13169319 GCCCTATATT
* *
13169329 TCGCTGCAGCGAGAATGATTC
1 TCGCTGCAGAGAGAA-GACTC
13169350 TCGCTGCAGAGAGAA-ACTC
1 TCGCTGCAGAGAGAAGACTC
13169369 TCG
1 TCG
13169372 GATTTGGAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 6 0.30
21 14 0.70
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.21
Consensus pattern (20 bp):
TCGCTGCAGAGAGAAGACTC
Found at i:13175957 original size:43 final size:43
Alignment explanation
Indices: 13175909--13176015 Score: 162
Period size: 43 Copynumber: 2.5 Consensus size: 43
13175899 CAGCTCATGT
* *
13175909 GCACTCCCTACTCGCACATAGCTGGGTTAGCATAGACTTATGC
1 GCACTCCCTACTCGCACATAGCAGGGTCAGCATAGACTTATGC
* * *
13175952 GCACTCCCTACTCGCACATAGCAGGGTCAGCATCGGCTTTTGC
1 GCACTCCCTACTCGCACATAGCAGGGTCAGCATAGACTTATGC
13175995 GCACTCCC-ACTCGCACATAGC
1 GCACTCCCTACTCGCACATAGC
13176016 CTGGTCAATA
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
42 13 0.22
43 46 0.78
ACGTcount: A:0.21, C:0.36, G:0.21, T:0.22
Consensus pattern (43 bp):
GCACTCCCTACTCGCACATAGCAGGGTCAGCATAGACTTATGC
Found at i:13176054 original size:2 final size:2
Alignment explanation
Indices: 13176047--13176133 Score: 102
Period size: 2 Copynumber: 41.5 Consensus size: 2
13176037 CACATATTCG
* *
13176047 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA AA TA GTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* *
13176090 GTA GTG CA TNA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 -TA -TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13176133 T
1 T
13176134 CAACAAAATG
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
2 67 0.88
3 9 0.12
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.45
Consensus pattern (2 bp):
TA
Found at i:13176133 original size:56 final size:55
Alignment explanation
Indices: 13176047--13176155 Score: 179
Period size: 54 Copynumber: 2.0 Consensus size: 55
13176037 CACATATTCG
13176047 TATATATATATATATATATATATATATATATAT--AC-AAATAGTAGTAGTGCATNA
1 TATATATATATATATATATATATATATATATATCAACAAAAT-GTAGTAGTGCAT-A
13176101 TATATATATATATATATATATATATATATATATCAACAAAATGTAGTAGTGCATA
1 TATATATATATATATATATATATATATATATATCAACAAAATGTAGTAGTGCATA
13176156 AATCCATAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
54 33 0.63
55 1 0.02
56 14 0.27
57 4 0.08
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (55 bp):
TATATATATATATATATATATATATATATATATCAACAAAATGTAGTAGTGCATA
Found at i:13181859 original size:38 final size:40
Alignment explanation
Indices: 13181816--13181919 Score: 124
Period size: 38 Copynumber: 2.6 Consensus size: 40
13181806 GATAGTGCCC
* *
13181816 GTGTGCACAATGTGGGGGGATGTACACGAT-G-GCACTGAT
1 GTGTGCACGATGTGGGGGGATGTACACGATAGTGC-CGGAT
* * *
13181855 -TGTGCACGATGTGGGGGGATGCACATGATAGTGCCGGCT
1 GTGTGCACGATGTGGGGGGATGTACACGATAGTGCCGGAT
*
13181894 GTGTGCACGATGTGGGGGTATGTACA
1 GTGTGCACGATGTGGGGGGATGTACA
13181920 TGAGTCGGGT
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
38 26 0.47
39 4 0.07
40 25 0.45
ACGTcount: A:0.20, C:0.15, G:0.40, T:0.24
Consensus pattern (40 bp):
GTGTGCACGATGTGGGGGGATGTACACGATAGTGCCGGAT
Found at i:13181907 original size:40 final size:39
Alignment explanation
Indices: 13181804--13181922 Score: 131
Period size: 40 Copynumber: 3.1 Consensus size: 39
13181794 GAGGTGGATG
*
13181804 ATGATAGTGCC-C-GTGTGCACAATGTGGGGGGATGTAC
1 ATGATAGTGCCGCTGTGTGCACGATGTGGGGGGATGTAC
* * *
13181841 ACGAT-G-G-CACTGATTGTGCACGATGTGGGGGGATGCAC
1 ATGATAGTGCCGCTG--TGTGCACGATGTGGGGGGATGTAC
*
13181879 ATGATAGTGCCGGCTGTGTGCACGATGTGGGGGTATGTAC
1 ATGATAGTGCC-GCTGTGTGCACGATGTGGGGGGATGTAC
13181919 ATGA
1 ATGA
13181923 GTCGGGTGTG
Statistics
Matches: 67, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
34 1 0.01
35 2 0.03
36 2 0.03
37 4 0.06
38 26 0.39
39 1 0.01
40 27 0.40
41 1 0.01
42 3 0.04
ACGTcount: A:0.21, C:0.16, G:0.39, T:0.24
Consensus pattern (39 bp):
ATGATAGTGCCGCTGTGTGCACGATGTGGGGGGATGTAC
Found at i:13183126 original size:443 final size:440
Alignment explanation
Indices: 13182282--13186187 Score: 4428
Period size: 443 Copynumber: 8.9 Consensus size: 440
13182272 AACAAAAAAG
* * ** *
13182282 GAATCTCACTGCAGCAAAAAACCTTCTGTTTTCATCTCCTATCTTGTCCAATTACTGCCCTATCT
1 GAATCTCGCTGCAGCGAAAAACCTTCTGTTTTGGTCTCCTATCTTGTCCAATTGCTGCCCTATCT
* * * *
13182347 TTCACTTCTATACTACCATATCAGAGCATGGACTTCCCACATTAAGAATTAAATGAGTTAAATTT
66 TTCACTTCTTTACTACCATATCAGAGCATGGACTTCCTACATTAAGGATTAAATGAGTTAAGTTT
* * *
13182412 AAAGGGAGGAGGTTTAATGAGAAATCCTCGGCCAGTTGAAAAACCCTCGGTCAGCTAATAGCCAA
131 AAAGGGAGGAGGTTTAGTGAGAAATCCTCGGCCAGTTGAGAAACCCTCGGTCAGCTAATAACCAA
13182477 ATCCCAACGTCGCTACAGCGAAAAGGCATTCTCGCTGCAGCGAGAAACTCTCGGGTTTGAGAACC
196 ATCCCAA-GTCGCT-CAGC--AAAGGCATTCTCGCTGCAGCGAGAAACTCTCGGGTTTGAGAACC
* * * * *
13182542 TTCACCAGAACTGGTTCTCACTGCAGCGAGAATGTATTTCACTGCAACAAGATAGTCACTGTAGC
257 TTCACCAGAACTGGTTCTCGCTACAGCGAGAATGTATTTCGCTGCAGCGAGATAGTCACTGTAGC
*
13182607 TTCTCGTTGCAGCGAAAAAGGAATCTCGCTGCAGCGAAAAACTCTCTGTTTCATCAGCAAAATTT
322 TTCTCGTTGCAGCGAAAAAGGAATCTCGCTGCAGCGAAAAACTCTCTGTTTCATCAGCGAAATTT
* *
13182672 TACCGCAGCGAGAAACCTTCTGTTTCTGGGTT-CAATTTCGAAGCAGCGAGAAA
387 CACCGCAGCGAGAAACCTTCTGTTTCTGGGTTACAATTTCGACGCAGCGAGAAA
*
13182725 GAATCTCGCTGCAGCGAAAAACCTTCTGTTTTGGTCTCCTATCTTTTCCAATTGCTGCCCTATCT
1 GAATCTCGCTGCAGCGAAAAACCTTCTGTTTTGGTCTCCTATCTTGTCCAATTGCTGCCCTATCT
* *
13182790 TTCACTTCTTTACTGCCATATCAGAGCATGGACTTCCTACATTAAGGATCAAATGAGTTAAGTTT
66 TTCACTTCTTTACTACCATATCAGAGCATGGACTTCCTACATTAAGGATTAAATGAGTTAAGTTT
** * * * * *
13182855 AAACAGAGGAGGTTGAGTGAGAAATCCTTGGCCAGTTAAGAAACCCTCAGTCAGCTAATAACTAA
131 AAAGGGAGGAGGTTTAGTGAGAAATCCTCGGCCAGTTGAGAAACCCTCGGTCAGCTAATAACCAA
*
13182920 ATCCCAACGTCGCTGCAGCGGAAAGGCATTCTCGCTGCAACGAGAAACTCTCGGGTTTGAGAACC
196 ATCCCAA-GTCGCT-CAGC--AAAGGCATTCTCGCTGCAGCGAGAAACTCTCGGGTTTGAGAACC
* * *
13182985 TTCACTAGAACTGGTTCTCGCTACAGCGAGAATGTATTTCGCTACAGCGAGATAGTCACTGTAAC
257 TTCACCAGAACTGGTTCTCGCTACAGCGAGAATGTATTTCGCTGCAGCGAGATAGTCACTGTAGC
* ** **
13183050 TTCTCGTTGCAGCAAAAAATAAATCTCGCTGCAATGAAAAACTCTCTGTTTCATCAGCGAAATTT
322 TTCTCGTTGCAGCGAAAAAGGAATCTCGCTGCAGCGAAAAACTCTCTGTTTCATCAGCGAAATTT
* * *
13183115 CACCACAGCGAGAAAGAATCTATCTGCAGCGAGAAACCTTCTATTTCTGGGATACAATTTCGCCG
387 --------C--------A-C---C-GCAGCGAGAAACCTTCTGTTTCTGGGTTACAATTTCGACG
*
13183180 TAGCGAGAAA
431 CAGCGAGAAA
* * *
13183190 GAATCTCGCTGCAACGAAAAACCTTTTGTTTTGGTCTCCTATCTTGTCCAATTGCTGCCTTATCT
1 GAATCTCGCTGCAGCGAAAAACCTTCTGTTTTGGTCTCCTATCTTGTCCAATTGCTGCCCTATCT
* * * * *
13183255 TTCACTTATTTACTAACATATTAGACCATGGACTTCCTACATTAAGAATTAAATGAGTTAAGTTT
66 TTCACTTCTTTACTACCATATCAGAGCATGGACTTCCTACATTAAGGATTAAATGAGTTAAGTTT
* * * *
13183320 AAAGGAAAGAGGTTTAGTGAGAAATCCTCGACCAGTTGAAAAACCCTCGGTCAGCTAATAACCAA
131 AAAGGGAGGAGGTTTAGTGAGAAATCCTCGGCCAGTTGAGAAACCCTCGGTCAGCTAATAACCAA
* * *
13183385 ATCCCAATGTCGTTGTAGCGAAAAGGCATTCTCGCTGCAGCGAGAAACTTTCGGGTTTGAGAACC
196 ATCCCAA-GTCGCT-CAGC--AAAGGCATTCTCGCTGCAGCGAGAAACTCTCGGGTTTGAGAACC
* * *
13183450 TTCACCAGAATTGGTTCTCG-TAGCAGCGAGAATGTATTTCACTGCAGCGAGATAG-CACTATAG
257 TTCACCAGAACTGGTTCTCGCTA-CAGCGAGAATGTATTTCGCTGCAGCGAGATAGTCACTGTAG
* * * *
13183513 CTTCTCATTAG-AGCAAAAAAGGAATCTTGCTGCAGCGAAAAACTCTCTGTTTCATTAGCGAAAT
321 CTTCTCGTT-GCAGCGAAAAAGGAATCTCGCTGCAGCGAAAAACTCTCTGTTTCATCAGCGAAAT
* * * *
13183577 TTCACCGCAGTGAGAAACCTTCTGTTTCTGGGTTACAATTGC-ACTGTAGCAAGAAA
385 TTCACCGCAGCGAGAAACCTTCTGTTTCTGGGTTACAATTTCGAC-GCAGCGAGAAA
* *
13183633 GAATCTCGCTGCAGCGAAAAACCTTCTGTTTTGGTCTCTTATCTTTTCCAATTGCTGCCCTATCT
1 GAATCTCGCTGCAGCGAAAAACCTTCTGTTTTGGTCTCCTATCTTGTCCAATTGCTGCCCTATCT
* *
13183698 TTCACTTCTTTACTACCATATCAAAGCATGGACTTCCTACATTAAGAATTAAATGAGTTAAGTTT
66 TTCACTTCTTTACTACCATATCAGAGCATGGACTTCCTACATTAAGGATTAAATGAGTTAAGTTT
* *
13183763 AAAGGGAGGAGGTTTAGTGAGAAATCCTCGACCAGTTGAGAAACCCTCGATC-GACTAATAACC-
131 AAAGGGAGGAGGTTTAGTGAGAAATCCTCGGCCAGTTGAGAAACCCTCGGTCAG-CTAATAACCA
*
13183826 -A----AA-TC-CT-----AAGG-----TCGCTGCAGCGAGAAACTCTCAGGTTTGAGAACCTTC
195 AATCCCAAGTCGCTCAGCAAAGGCATTCTCGCTGCAGCGAGAAACTCTCGGGTTTGAGAACCTTC
* * * * *
13183874 ACCAGAACCGGTTCTCGCTATAGCAAGAATGTATTTCGCTGTAGCGAGATAGTCACTATAGCTTC
260 ACCAGAACTGGTTCTCGCTACAGCGAGAATGTATTTCGCTGCAGCGAGATAGTCACTGTAGCTTC
* * * * *
13183939 TCGTTACAGCGAAAAAGGTATCTCGCTGCGGCGAAAAA--CACTATTTCATCAGCGAAATTTCAC
325 TCGTTGCAGCGAAAAAGGAATCTCGCTGCAGCGAAAAACTCTCTGTTTCATCAGCGAAATTTCAC
* * *
13184002 CGCAGCGAGAAACATTCTGTTTTTGGGTTACAATTTC-ATCGCAGCAAGAAA
390 CGCAGCGAGAAACCTTCTGTTTCTGGGTTACAATTTCGA-CGCAGCGAGAAA
* ** *
13184053 GAATCTCGCTGCAGTG-AAAACCTTCTGTTTTAATCTCCTATCTTGTCCAATTGTTGCCCTATCT
1 GAATCTCGCTGCAGCGAAAAACCTTCTGTTTTGGTCTCCTATCTTGTCCAATTGCTGCCCTATCT
* * * *
13184117 TTTACTTCTTTACTACCACACCTGAGCATGGACTTCCTACATTAAGGATTAAATGAGTTAAGTTT
66 TTCACTTCTTTACTACCATATCAGAGCATGGACTTCCTACATTAAGGATTAAATGAGTTAAGTTT
* *
13184182 AAAGGGAGGAGGTTTAGTGAGAAATCCTCGACCAGTTGAGAAACCCTCGGTCGGCTAATAACC--
131 AAAGGGAGGAGGTTTAGTGAGAAATCCTCGGCCAGTTGAGAAACCCTCGGTCAGCTAATAACCAA
*
13184245 A----AA-T--C-C--C-AAGG-----TCGCTGCAGCGAGAAACTCTCGAGTTTGAGAACCTTCA
196 ATCCCAAGTCGCTCAGCAAAGGCATTCTCGCTGCAGCGAGAAACTCTCGGGTTTGAGAACCTTCA
* * * *
13184294 CCAGAATTGGTTCTTGCTAAAGCGAGAATGTATTTCGCTGCAGCGAGATAGTCATTGTAGCTTCT
261 CCAGAACTGGTTCTCGCTACAGCGAGAATGTATTTCGCTGCAGCGAGATAGTCACTGTAGCTTCT
* * *
13184359 CGTTGCAGCGAAAAAGGAATCTCGCTGCAGCAAAAAACTCTCTGTTTCATCATCAAAATTTCACC
326 CGTTGCAGCGAAAAAGGAATCTCGCTGCAGCGAAAAACTCTCTGTTTCATCAGCGAAATTTCACC
* *
13184424 GCAGCGAGAAACCTTCTGTTTCTGGGTTACAACTTT--ATCACAGCAAGAAA
391 GCAGCGAGAAACCTTCTGTTTCTGGGTTACAA-TTTCGA-CGCAGCGAGAAA
* * * * *
13184474 GAATCTCACTGCAGTGAAAAACATTCTGTTTTGGTCTCCTATCTTGTCCAATTGTTGCTCTATCT
1 GAATCTCGCTGCAGCGAAAAACCTTCTGTTTTGGTCTCCTATCTTGTCCAATTGCTGCCCTATCT
* * * *
13184539 TTCACTTCTGTACTACCATATCAAAGCATGGACTTCCTACATTAAGGAATAAATGAGTTGAGTTT
66 TTCACTTCTTTACTACCATATCAGAGCATGGACTTCCTACATTAAGGATTAAATGAGTTAAGTTT
** * * *
13184604 AAAATGAGGAGGTTTAGTGAGAAATCCTCAGTCAATTGAGAAACCCTCGGTCAGCTAATAACCAA
131 AAAGGGAGGAGGTTTAGTGAGAAATCCTCGGCCAGTTGAGAAACCCTCGGTCAGCTAATAACCAA
* * *
13184669 ATCCCAACGTCGCTGCAGCAAAAAGGCATTCTCGTTGCAGCAAAAAACTCTCGGGTTTGAGAACC
196 ATCCCAA-GTCGCT-CAGC--AAAGGCATTCTCGCTGCAGCGAGAAACTCTCGGGTTTGAGAACC
* * *
13184734 TTCACCAGAACTGGTTCTCACTACAGCGAGAATGTATTTCACTGCAGCGAGATAGTCACTATAGC
257 TTCACCAGAACTGGTTCTCGCTACAGCGAGAATGTATTTCGCTGCAGCGAGATAGTCACTGTAGC
* * * *
13184799 TTCTAGTTGCAGTGAAAAAGAAATCTCGCTGCAGTGAAAAACTCTCTGTTTCATCAGCGAAATTT
322 TTCTCGTTGCAGCGAAAAAGGAATCTCGCTGCAGCGAAAAACTCTCTGTTTCATCAGCGAAATTT
* * *
13184864 CATCACAGCGAGAAACCTTCTGTTTCTGAGTTACAATTTC-ACCGCAGCGAGAAA
387 CACCGCAGCGAGAAACCTTCTGTTTCTGGGTTACAATTTCGA-CGCAGCGAGAAA
* * * * * *
13184918 GAATCTCGCTTCAGCAAAAAACCTTCTATTTCGGTCTCCTATCTGGTCCAATTGCGGCCCTATCT
1 GAATCTCGCTGCAGCGAAAAACCTTCTGTTTTGGTCTCCTATCTTGTCCAATTGCTGCCCTATCT
*
13184983 TTCACTTCTTTACTACCATATCAAAGCATGGACTTCCTACATTAAGGATTAAATGAGTTAAGTTT
66 TTCACTTCTTTACTACCATATCAGAGCATGGACTTCCTACATTAAGGATTAAATGAGTTAAGTTT
* * * * * * *
13185048 AAAGGGAGGAGGTTTAATGAAAAATCCTCAGCCAGTTTAGAATCCCTCGGACGGCTAATAACCAA
131 AAAGGGAGGAGGTTTAGTGAGAAATCCTCGGCCAGTTGAGAAACCCTCGGTCAGCTAATAACCAA
* * * *
13185113 ATCCCAACATCGTTGCAGCGAAAAGGCATTCTTGCTGCAGCGAGAAACTCTCAGGTTTGAGAACC
196 ATCCCAA-GTCGCT-CAGC--AAAGGCATTCTCGCTGCAGCGAGAAACTCTCGGGTTTGAGAACC
* * * *
13185178 TTCACCAGAACTGGTTCTCGCTGCAGCGAGAATGTATTTTGCTGCAGCGATATAGTCACTGTAAC
257 TTCACCAGAACTGGTTCTCGCTACAGCGAGAATGTATTTCGCTGCAGCGAGATAGTCACTGTAGC
* * * * * *
13185243 TTCTCGTTGTAGCGAAGAAGGAATCTCGTTGCAGTGAAAAACTCCCTATTTCATCAGCGAAAGTT
322 TTCTCGTTGCAGCGAAAAAGGAATCTCGCTGCAGCGAAAAACTCTCTGTTTCATCAGCGAAA-TT
* *
13185308 CATCGCAGCAAGAAAGAATCTCTCCGCAGCGAAAAACCTTCTGTTTCTGGGTTACAATTTCGTCG
386 --T-----C--------A-----CCGCAGCGAGAAACCTTCTGTTTCTGGGTTACAATTTCGACG
13185373 CAGCGAGAAA
431 CAGCGAGAAA
* * *
13185383 GAATCTCGCTGCAGCGAAAAACCTTCTATTTTGGTCTCCTATCTTCTCCAATTGTTGCCCTATCT
1 GAATCTCGCTGCAGCGAAAAACCTTCTGTTTTGGTCTCCTATCTTGTCCAATTGCTGCCCTATCT
* *
13185448 TTCATTTCTTTACTACCATATCAGAGCATGGACTTCCTACATTAAGGATAAAATGAGTTAAGTTT
66 TTCACTTCTTTACTACCATATCAGAGCATGGACTTCCTACATTAAGGATTAAATGAGTTAAGTTT
* **
13185513 AAAGGGAGAAGGTTTAGTGAGAAATCCTCGGCCAGTTGAGAAACCCTCAATC-GACTAATAACCA
131 AAAGGGAGGAGGTTTAGTGAGAAATCCTCGGCCAGTTGAGAAACCCTCGGTCAG-CTAATAACCA
13185577 AATCCCAAG--G-T---------CA------CTGCAGCGAGAAACTCTCGGGTTTGAGAACCTTC
195 AATCCCAAGTCGCTCAGCAAAGGCATTCTCGCTGCAGCGAGAAACTCTCGGGTTTGAGAACCTTC
*
13185624 ACC---A---------G--A-A-C-AG-A--T-TCTCGCTGCAGCGAGATAGTCACTGTAGCTTC
260 ACCAGAACTGGTTCTCGCTACAGCGAGAATGTATTTCGCTGCAGCGAGATAGTCACTGTAGCTTC
* * * *
13185668 TCGTTGCAGCGAAAAAGGTATCTCGCTGCAGCGAAAAACACTCTATTTCATCTGCGAAATTTCAC
325 TCGTTGCAGCGAAAAAGGAATCTCGCTGCAGCGAAAAACTCTCTGTTTCATCAGCGAAATTTCAC
* * *
13185733 CGCAGCGAGAAAAAATCTCGCTGCAGCGAGAAACATTCTGTTTTTGGGTTACAATTTCGTCGTAG
390 CGCAGCGAG----AA---------A-C------C-TTCTGTTTCTGGGTTACAATTTCGACGCAG
*
13185798 GGAGAAA
434 CGAGAAA
* * * *
13185805 GAATCTCGCTGCAGTGAAAAACCTTCTATTTTGGTCTCCTATCTTGTCCAATTGTTACCCTATCT
1 GAATCTCGCTGCAGCGAAAAACCTTCTGTTTTGGTCTCCTATCTTGTCCAATTGCTGCCCTATCT
13185870 TTCACTTCTTTACTACCATATCAGAGCATGGACTTCCTACATTAAGGATTAAATGAGTTAAGTTT
66 TTCACTTCTTTACTACCATATCAGAGCATGGACTTCCTACATTAAGGATTAAATGAGTTAAGTTT
* *
13185935 AAAGGCAGGAGGTTTAGTGAGAAATCCTCGGCCAGTTGAGAAACCCTCGGTCGGCTAATAACCAA
131 AAAGGGAGGAGGTTTAGTGAGAAATCCTCGGCCAGTTGAGAAACCCTCGGTCAGCTAATAACCAA
13186000 ATCCCAAG--G-T---C----G----CT---T-CAGCGAGAAACTCTCGGGTTTGAGAACCTTCA
196 ATCCCAAGTCGCTCAGCAAAGGCATTCTCGCTGCAGCGAGAAACTCTCGGGTTTGAGAACCTTCA
* * * *
13186047 CCCGAA-TCGGTTCTCACTGCAGCGAGAATGTATTTCGCTGCAGCGAGATAGTCACTGTCGCTTC
261 CCAGAACT-GGTTCTCGCTACAGCGAGAATGTATTTCGCTGCAGCGAGATAGTCACTGTAGCTTC
* * * * * *
13186111 TCGTTGCAGCGAAAAAGGTATCTCGCTGTAGCGAAAAACACTCTATTTCATCAACTAAATTTCAC
325 TCGTTGCAGCGAAAAAGGAATCTCGCTGCAGCGAAAAACTCTCTGTTTCATCAGCGAAATTTCAC
13186176 CGCAGCGAGAAA
390 CGCAGCGAGAAA
13186188 AAATCTCGCT
Statistics
Matches: 3019, Mismatches: 314, Indels: 273
0.84 0.09 0.08
Matches are distributed among these distances:
401 9 0.00
405 2 0.00
406 1 0.00
414 2 0.00
415 1 0.00
418 1 0.00
419 297 0.10
420 82 0.03
421 162 0.05
422 546 0.18
423 3 0.00
424 1 0.00
425 2 0.00
426 6 0.00
427 1 0.00
428 3 0.00
430 2 0.00
431 1 0.00
432 1 0.00
434 2 0.00
435 2 0.00
436 1 0.00
437 3 0.00
438 1 0.00
439 8 0.00
440 2 0.00
441 1 0.00
442 3 0.00
443 709 0.23
444 531 0.18
445 2 0.00
447 2 0.00
448 1 0.00
449 2 0.00
452 1 0.00
456 1 0.00
459 1 0.00
460 2 0.00
461 1 0.00
462 1 0.00
463 1 0.00
464 92 0.03
465 526 0.17
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.28
Consensus pattern (440 bp):
GAATCTCGCTGCAGCGAAAAACCTTCTGTTTTGGTCTCCTATCTTGTCCAATTGCTGCCCTATCT
TTCACTTCTTTACTACCATATCAGAGCATGGACTTCCTACATTAAGGATTAAATGAGTTAAGTTT
AAAGGGAGGAGGTTTAGTGAGAAATCCTCGGCCAGTTGAGAAACCCTCGGTCAGCTAATAACCAA
ATCCCAAGTCGCTCAGCAAAGGCATTCTCGCTGCAGCGAGAAACTCTCGGGTTTGAGAACCTTCA
CCAGAACTGGTTCTCGCTACAGCGAGAATGTATTTCGCTGCAGCGAGATAGTCACTGTAGCTTCT
CGTTGCAGCGAAAAAGGAATCTCGCTGCAGCGAAAAACTCTCTGTTTCATCAGCGAAATTTCACC
GCAGCGAGAAACCTTCTGTTTCTGGGTTACAATTTCGACGCAGCGAGAAA
Found at i:13184649 original size:422 final size:421
Alignment explanation
Indices: 13182508--13186187 Score: 3845
Period size: 422 Copynumber: 8.4 Consensus size: 421
13182498 AAAGGCATTC
* *
13182508 TCGCTGCAGCGAGAAACTCTCGGGTTTGAGAACCTTCACCAGAACTGGTTCTCACTGCAGCGAGA
1 TCGCTGCAGCGAGAAACTCTCGGGTTTGAGAACCTTCACCAGAACTGGTTCTCGCTACAGCGAGA
* * *
13182573 ATGTATTTCACTGCAACAAGATAGTCACTGTAGCTTCTCGTTGCAGCGAAAAAGGAATCTCGCTG
66 ATGTATTTCGCTGCAGCGAGATAGTCACTGTAGCTTCTCGTTGCAGCGAAAAAGGAATCTCGCTG
*
13182638 CAGCGAAAAACTCTCTGTTTCATCAGCAAAATTTTACCGCAGCGAGAAACCTTCTGTTTCTGGGT
131 CAGCGAAAAACTCTCTGTTTCATCAGCAAAATTTCACCGCAGCGAGAAACCTTCTGTTTCTGGGT
* * *
13182703 T-CAATTTCGA-AGCAGCGAGAAAGAATCTCGCTGCAGCGAAAAACCTTCTGTTTTGGTCTCCTA
196 TACAATTTC-ATCGCAGCAAGAAAGAATCTCGCTGCAGCGAAAAACCTTCTATTTTGGTCTCCTA
* * * *
13182766 TCTTTTCCAATTGCTGCCCTATCTTTCACTTCTTTACTGCCATATCAGAGCATGGACTTCCTACA
260 TCTTGTCCAATTGTTGCCCTATCTTTCACTTCTTTACTACCATATCAAAGCATGGACTTCCTACA
** * * *
13182831 TTAAGG-ATCAAATGAGTTAAGTTTAAACAGAGGAGGTTGAGTGAGAAATCCTTGGCCAGTTAAG
325 TTAAGGAAT-AAATGAGTTAAGTTTAAAGGGAGGAGGTTTAGTGAGAAATCC-TCGCCAGTTGAG
* * *
13182895 AAACCCTCAGTCAGCTAATAACTAAATCCCAACGTCGCTGCAGCGGAAAGG
388 AAACCCTCGGTCGGC---TAA-T-AA--CCAA-AT--C--C--C---AAGG
* *
13182946 CATTCTCGCTGCAACGAGAAACTCTCGGGTTTGAGAACCTTCACTAGAACTGGTTCTCGCTACAG
1 -----TCGCTGCAGCGAGAAACTCTCGGGTTTGAGAACCTTCACCAGAACTGGTTCTCGCTACAG
* * * **
13183011 CGAGAATGTATTTCGCTACAGCGAGATAGTCACTGTAACTTCTCGTTGCAGCAAAAAATAAATCT
61 CGAGAATGTATTTCGCTGCAGCGAGATAGTCACTGTAGCTTCTCGTTGCAGCGAAAAAGGAATCT
** *
13183076 CGCTGCAATGAAAAACTCTCTGTTTCATCAGCGAAATTTCACCACAGCGAGAAAGAATCTATCTG
126 CGCTGCAGCGAAAAACTCTCTGTTTCATCAGCAAAATTT--------C--------A-C---C-G
* * ** * * *
13183141 CAGCGAGAAACCTTCTATTTCTGGGATACAATTTCGCCGTAGCGAGAAAGAATCTCGCTGCAACG
170 CAGCGAGAAACCTTCTGTTTCTGGGTTACAATTTCATCGCAGCAAGAAAGAATCTCGCTGCAGCG
* * * * * *
13183206 AAAAACCTTTTGTTTTGGTCTCCTATCTTGTCCAATTGCTGCCTTATCTTTCACTTATTTACTAA
235 AAAAACCTTCTATTTTGGTCTCCTATCTTGTCCAATTGTTGCCCTATCTTTCACTTCTTTACTAC
* * * * *
13183271 CATATTAGACCATGGACTTCCTACATTAA-GAATTAAATGAGTTAAGTTTAAAGGAAAGAGGTTT
300 CATATCAAAGCATGGACTTCCTACATTAAGGAA-TAAATGAGTTAAGTTTAAAGGGAGGAGGTTT
* *
13183335 AGTGAGAAATCCTCGACCAGTTGAAAAACCCTCGGTCAGCTAATAACCAAATCCCAATGTCGTTG
364 AGTGAGAAATCCTCG-CCAGTTGAGAAACCCTCGGTCGGCTAATAACCAAAT--C-----C----
13183400 TAGCGAAAAGG
417 ---C---AAGG
* *
13183411 CATTCTCGCTGCAGCGAGAAACTTTCGGGTTTGAGAACCTTCACCAGAATTGGTTCTCG-TAGCA
1 -----TCGCTGCAGCGAGAAACTCTCGGGTTTGAGAACCTTCACCAGAACTGGTTCTCGCTA-CA
* * * *
13183475 GCGAGAATGTATTTCACTGCAGCGAGATAG-CACTATAGCTTCTCATTAG-AGCAAAAAAGGAAT
60 GCGAGAATGTATTTCGCTGCAGCGAGATAGTCACTGTAGCTTCTCGTT-GCAGCGAAAAAGGAAT
* * * *
13183538 CTTGCTGCAGCGAAAAACTCTCTGTTTCATTAGCGAAATTTCACCGCAGTGAGAAACCTTCTGTT
124 CTCGCTGCAGCGAAAAACTCTCTGTTTCATCAGCAAAATTTCACCGCAGCGAGAAACCTTCTGTT
* * *
13183603 TCTGGGTTACAATTGCA-CTGTAGCAAGAAAGAATCTCGCTGCAGCGAAAAACCTTCTGTTTTGG
189 TCTGGGTTACAATTTCATC-GCAGCAAGAAAGAATCTCGCTGCAGCGAAAAACCTTCTATTTTGG
* * *
13183667 TCTCTTATCTTTTCCAATTGCTGCCCTATCTTTCACTTCTTTACTACCATATCAAAGCATGGACT
253 TCTCCTATCTTGTCCAATTGTTGCCCTATCTTTCACTTCTTTACTACCATATCAAAGCATGGACT
13183732 TCCTACATTAA-GAATTAAATGAGTTAAGTTTAAAGGGAGGAGGTTTAGTGAGAAATCCTCGACC
318 TCCTACATTAAGGAA-TAAATGAGTTAAGTTTAAAGGGAGGAGGTTTAGTGAGAAATCCTCG-CC
* * *
13183796 AGTTGAGAAACCCTCGATCGACTAATAACCAAATCCTAAGG
381 AGTTGAGAAACCCTCGGTCGGCTAATAACCAAATCCCAAGG
* * * *
13183837 TCGCTGCAGCGAGAAACTCTCAGGTTTGAGAACCTTCACCAGAACCGGTTCTCGCTATAGCAAGA
1 TCGCTGCAGCGAGAAACTCTCGGGTTTGAGAACCTTCACCAGAACTGGTTCTCGCTACAGCGAGA
* * * *
13183902 ATGTATTTCGCTGTAGCGAGATAGTCACTATAGCTTCTCGTTACAGCGAAAAAGGTATCTCGCTG
66 ATGTATTTCGCTGCAGCGAGATAGTCACTGTAGCTTCTCGTTGCAGCGAAAAAGGAATCTCGCTG
* * * * * *
13183967 CGGCGAAAAA--CACTATTTCATCAGCGAAATTTCACCGCAGCGAGAAACATTCTGTTTTTGGGT
131 CAGCGAAAAACTCTCTGTTTCATCAGCAAAATTTCACCGCAGCGAGAAACCTTCTGTTTCTGGGT
* * **
13184030 TACAATTTCATCGCAGCAAGAAAGAATCTCGCTGCAGTG-AAAACCTTCTGTTTTAATCTCCTAT
196 TACAATTTCATCGCAGCAAGAAAGAATCTCGCTGCAGCGAAAAACCTTCTATTTTGGTCTCCTAT
* * * **
13184094 CTTGTCCAATTGTTGCCCTATCTTTTACTTCTTTACTACCACACCTGAGCATGGACTTCCTACAT
261 CTTGTCCAATTGTTGCCCTATCTTTCACTTCTTTACTACCATATCAAAGCATGGACTTCCTACAT
*
13184159 TAAGGATTAAATGAGTTAAGTTTAAAGGGAGGAGGTTTAGTGAGAAATCCTCGACCAGTTGAGAA
326 TAAGGAATAAATGAGTTAAGTTTAAAGGGAGGAGGTTTAGTGAGAAATCCTCG-CCAGTTGAGAA
13184224 ACCCTCGGTCGGCTAATAACCAAATCCCAAGG
390 ACCCTCGGTCGGCTAATAACCAAATCCCAAGG
* * * *
13184256 TCGCTGCAGCGAGAAACTCTCGAGTTTGAGAACCTTCACCAGAATTGGTTCTTGCTAAAGCGAGA
1 TCGCTGCAGCGAGAAACTCTCGGGTTTGAGAACCTTCACCAGAACTGGTTCTCGCTACAGCGAGA
*
13184321 ATGTATTTCGCTGCAGCGAGATAGTCATTGTAGCTTCTCGTTGCAGCGAAAAAGGAATCTCGCTG
66 ATGTATTTCGCTGCAGCGAGATAGTCACTGTAGCTTCTCGTTGCAGCGAAAAAGGAATCTCGCTG
* *
13184386 CAGCAAAAAACTCTCTGTTTCATCATCAAAATTTCACCGCAGCGAGAAACCTTCTGTTTCTGGGT
131 CAGCGAAAAACTCTCTGTTTCATCAGCAAAATTTCACCGCAGCGAGAAACCTTCTGTTTCTGGGT
* * * * *
13184451 TACAACTTT-ATCACAGCAAGAAAGAATCTCACTGCAGTGAAAAACATTCTGTTTTGGTCTCCTA
196 TACAA-TTTCATCGCAGCAAGAAAGAATCTCGCTGCAGCGAAAAACCTTCTATTTTGGTCTCCTA
* *
13184515 TCTTGTCCAATTGTTGCTCTATCTTTCACTTCTGTACTACCATATCAAAGCATGGACTTCCTACA
260 TCTTGTCCAATTGTTGCCCTATCTTTCACTTCTTTACTACCATATCAAAGCATGGACTTCCTACA
* ** * *
13184580 TTAAGGAATAAATGAGTTGAGTTTAAAATGAGGAGGTTTAGTGAGAAATCCTCAGTCAATTGAGA
325 TTAAGGAATAAATGAGTTAAGTTTAAAGGGAGGAGGTTTAGTGAGAAATCCTC-GCCAGTTGAGA
* *
13184645 AACCCTCGGTCAGCTAATAACCAAATCCCAACG
389 AACCCTCGGTCGGCTAATAACCAAATCCCAAGG
13184678 TCGCTGCAGCAAAAAGGCATTCTCGTTGCAGCAAAAAACTCTCGGGTTTGAGAACCTTCACCAGA
1 TCGCT---GC----A-G------C---G-AG----AAACTCTCGGGTTTGAGAACCTTCACCAGA
* * * *
13184743 ACTGGTTCTCACTACAGCGAGAATGTATTTCACTGCAGCGAGATAGTCACTATAGCTTCTAGTTG
44 ACTGGTTCTCGCTACAGCGAGAATGTATTTCGCTGCAGCGAGATAGTCACTGTAGCTTCTCGTTG
* * * * * *
13184808 CAGTGAAAAAGAAATCTCGCTGCAGTGAAAAACTCTCTGTTTCATCAGCGAAATTTCATCACAGC
109 CAGCGAAAAAGGAATCTCGCTGCAGCGAAAAACTCTCTGTTTCATCAGCAAAATTTCACCGCAGC
* * * * *
13184873 GAGAAACCTTCTGTTTCTGAGTTACAATTTCACCGCAGCGAGAAAGAATCTCGCTTCAGCAAAAA
174 GAGAAACCTTCTGTTTCTGGGTTACAATTTCATCGCAGCAAGAAAGAATCTCGCTGCAGCGAAAA
* * **
13184938 ACCTTCTATTTCGGTCTCCTATCTGGTCCAATTGCGGCCCTATCTTTCACTTCTTTACTACCATA
239 ACCTTCTATTTTGGTCTCCTATCTTGTCCAATTGTTGCCCTATCTTTCACTTCTTTACTACCATA
* *
13185003 TCAAAGCATGGACTTCCTACATTAAGGATTAAATGAGTTAAGTTTAAAGGGAGGAGGTTTAATGA
304 TCAAAGCATGGACTTCCTACATTAAGGAATAAATGAGTTAAGTTTAAAGGGAGGAGGTTTAGTGA
* * * *
13185068 AAAATCCTCAGCCAGTTTAGAATCCCTCGGACGGCTAATAACCAAATCCCAACATCGTTGCAGCG
369 GAAATCCTC-GCCAGTTGAGAAACCCTCGGTCGGCTAAT-----AA--CCAA-ATC----C--C-
13185133 AAAAGG
418 --AAGG
* *
13185139 CATTCTTGCTGCAGCGAGAAACTCTCAGGTTTGAGAACCTTCACCAGAACTGGTTCTCGCTGCAG
1 ---TC--GCTGCAGCGAGAAACTCTCGGGTTTGAGAACCTTCACCAGAACTGGTTCTCGCTACAG
* * * * *
13185204 CGAGAATGTATTTTGCTGCAGCGATATAGTCACTGTAACTTCTCGTTGTAGCGAAGAAGGAATCT
61 CGAGAATGTATTTCGCTGCAGCGAGATAGTCACTGTAGCTTCTCGTTGCAGCGAAAAAGGAATCT
* * * * *
13185269 CGTTGCAGTGAAAAACTCCCTATTTCATCAGCGAAAGTTCATCGCAGCAAGAAAGAATCTCTCCG
126 CGCTGCAGCGAAAAACT--C----TC-T----G---TTTCAT--CAGC----AA-AATTTCACCG
* * *
13185334 CAGCGAAAAACCTTCTGTTTCTGGGTTACAATTTCGTCGCAGCGAGAAAGAATCTCGCTGCAGCG
170 CAGCGAGAAACCTTCTGTTTCTGGGTTACAATTTCATCGCAGCAAGAAAGAATCTCGCTGCAGCG
* *
13185399 AAAAACCTTCTATTTTGGTCTCCTATCTTCTCCAATTGTTGCCCTATCTTTCATTTCTTTACTAC
235 AAAAACCTTCTATTTTGGTCTCCTATCTTGTCCAATTGTTGCCCTATCTTTCACTTCTTTACTAC
* *
13185464 CATATCAGAGCATGGACTTCCTACATTAAGG-ATAAAATGAGTTAAGTTTAAAGGGAGAAGGTTT
300 CATATCAAAGCATGGACTTCCTACATTAAGGAAT-AAATGAGTTAAGTTTAAAGGGAGGAGGTTT
** *
13185528 AGTGAGAAATCCTCGGCCAGTTGAGAAACCCTCAATCGACTAATAACCAAATCCCAAGG
364 AGTGAGAAATCCTC-GCCAGTTGAGAAACCCTCGGTCGGCTAATAACCAAATCCCAAGG
* * * *
13185587 TCACTGCAGCGAGAAACTCTCGGGTTTGAGAACCTTCACCAGAACAGATTCTCGCTGCAGCGAGA
1 TCGCTGCAGCGAGAAACTCTCGGGTTTGAGAACCTTCACCAGAACTGGTTCTCGCTACAGCGAG-
* ** * *
13185652 TAGTCACTGTAGCTTCTCGTTGCAGCGA-A-A---AAGGTA---TCTCGCTGCAGCGAAAAA-CA
65 -A---A-TGTA--TT-TCGCTGCAGCGAGATAGTCACTGTAGCTTCTCGTTGCAGCGAAAAAGGA
* ** * ** * * * * * * * *
13185708 CTCTATTTCAT-CTGCG-AAATTTCACCG---CAGCGAGAAAAAATCTCGCTGCAGCGAGAAACA
122 ATC--TCGC-TGCAGCGAAAAACTCTCTGTTTCATC-AG-CAAAATTTCACCGCAGCGAGAAACC
* * * ** *
13185768 TTCTGTTTTTGGGTTACAATTTCGTCGTAGGGAGAAAGAATCTCGCTGCAGTGAAAAACCTTCTA
182 TTCTGTTTCTGGGTTACAATTTCATCGCAGCAAGAAAGAATCTCGCTGCAGCGAAAAACCTTCTA
* *
13185833 TTTTGGTCTCCTATCTTGTCCAATTGTTACCCTATCTTTCACTTCTTTACTACCATATCAGAGCA
247 TTTTGGTCTCCTATCTTGTCCAATTGTTGCCCTATCTTTCACTTCTTTACTACCATATCAAAGCA
* *
13185898 TGGACTTCCTACATTAAGGATTAAATGAGTTAAGTTTAAAGGCAGGAGGTTTAGTGAGAAATCCT
312 TGGACTTCCTACATTAAGGAATAAATGAGTTAAGTTTAAAGGGAGGAGGTTTAGTGAGAAATCCT
13185963 CGGCCAGTTGAGAAACCCTCGGTCGGCTAATAACCAAATCCCAAGG
377 C-GCCAGTTGAGAAACCCTCGGTCGGCTAATAACCAAATCCCAAGG
* * * *
13186009 TCGCTTCAGCGAGAAACTCTCGGGTTTGAGAACCTTCACCCGAA-TCGGTTCTCACTGCAGCGAG
1 TCGCTGCAGCGAGAAACTCTCGGGTTTGAGAACCTTCACCAGAACT-GGTTCTCGCTACAGCGAG
* *
13186073 AATGTATTTCGCTGCAGCGAGATAGTCACTGTCGCTTCTCGTTGCAGCGAAAAAGGTATCTCGCT
65 AATGTATTTCGCTGCAGCGAGATAGTCACTGTAGCTTCTCGTTGCAGCGAAAAAGGAATCTCGCT
* * * * *
13186138 GTAGCGAAAAACACTCTATTTCATCAACTAAATTTCACCGCAGCGAGAAA
130 GCAGCGAAAAACTCTCTGTTTCATCAGCAAAATTTCACCGCAGCGAGAAA
13186188 AAATCTCGCT
Statistics
Matches: 2772, Mismatches: 321, Indels: 309
0.81 0.09 0.09
Matches are distributed among these distances:
413 11 0.00
414 3 0.00
415 1 0.00
416 4 0.00
417 1 0.00
418 3 0.00
419 297 0.11
420 89 0.03
421 181 0.07
422 541 0.20
423 5 0.00
424 3 0.00
425 3 0.00
426 6 0.00
427 2 0.00
429 1 0.00
430 1 0.00
433 1 0.00
436 2 0.00
438 1 0.00
439 1 0.00
440 2 0.00
441 1 0.00
442 2 0.00
443 436 0.16
444 480 0.17
445 7 0.00
446 2 0.00
447 5 0.00
448 8 0.00
449 7 0.00
450 3 0.00
451 9 0.00
452 14 0.01
453 1 0.00
455 1 0.00
456 2 0.00
457 6 0.00
458 15 0.01
459 2 0.00
460 10 0.00
461 4 0.00
462 3 0.00
463 3 0.00
464 98 0.04
465 490 0.18
466 4 0.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.28
Consensus pattern (421 bp):
TCGCTGCAGCGAGAAACTCTCGGGTTTGAGAACCTTCACCAGAACTGGTTCTCGCTACAGCGAGA
ATGTATTTCGCTGCAGCGAGATAGTCACTGTAGCTTCTCGTTGCAGCGAAAAAGGAATCTCGCTG
CAGCGAAAAACTCTCTGTTTCATCAGCAAAATTTCACCGCAGCGAGAAACCTTCTGTTTCTGGGT
TACAATTTCATCGCAGCAAGAAAGAATCTCGCTGCAGCGAAAAACCTTCTATTTTGGTCTCCTAT
CTTGTCCAATTGTTGCCCTATCTTTCACTTCTTTACTACCATATCAAAGCATGGACTTCCTACAT
TAAGGAATAAATGAGTTAAGTTTAAAGGGAGGAGGTTTAGTGAGAAATCCTCGCCAGTTGAGAAA
CCCTCGGTCGGCTAATAACCAAATCCCAAGG
Found at i:13186886 original size:805 final size:773
Alignment explanation
Indices: 13185371--13186992 Score: 1992
Period size: 805 Copynumber: 2.0 Consensus size: 773
13185361 ACAATTTCGT
* *
13185371 CGCAGCGAGAAAGAATCTCGCTGCAGCGAAAAACCTTCTATTTTGGTCTCCTATCTTCTCCAATT
1 CGCAGCGAGAAAAAATCTCGCTGCAGCGAAAAACCTTCTATTTGGGTCTCCTATCTTCTCCAATT
* *
13185436 GTTGCCCTATCTTTCATTTCTTTACTACCATATCAGAGCATGGACTTCCTACATTAAGGATAAAA
66 GTTGCCCTATCTTTCACTTATTTACTACCATATCAGAGCATGGACTTCCTACATTAAGGATAAAA
13185501 TGAGTTAAGTTTAAAGGGAGAAGGTTTAGTGAGAAATCCTCGGCCAGTTGAGAAACCCTCAATCG
131 TGAGTTAAGTTTAAAGGGAGAAGGTTTAGTGAGAAATCCT---CC---TGAG---------ATCG
*
13185566 ACTAATAACCAAATCCCAAGGTCACTGCAGCGAGAAACTCTCGGGTTTGAGAACCTTCACCAGAA
181 ACTAATAACCAAATCCCAAGGTCACTGCAGCGAGAAACTCTCAGGTTTGAGAACCTTCACCAGAA
* *
13185631 CAGATTCTCGCTGCAGCGAGATAGTCACTGTAGCTTCTCGTTGCAGCGAAAAAGGTATCTCGCTG
246 CAGATTCTCGCTGCAGCGAGATAGTCACTATAGCTTCTCGTTACAGCGAAAAAGGTATCTCGCTG
*
13185696 CAGCGAAAAACACTCTATTTCATCTGCGAAATTTCACCGCAGCGAGAAAAAATCTCGCTGCAGCG
311 CAGCGAAAAACAC-CTATTTCATCAGCGAAATTT-----C--C-------AA--TCGCTGCAGCG
* * **
13185761 AGAAACATTCTGTTTTTGGGTTACAATTTCGTCGTAGGGAGAAAGAATCTCGCTGCAGTGAAAAA
359 AGAAACATTCTGTTTTTGGGTTACAATTTCATCGCAGCAAGAAAGAATCTCGCTGCAGTGAAAAA
** * *
13185826 CCTTCTATTTTGGTCTCCTATCTTGTCCAATTGTTACCCTATCTTTCACTTCTTTACTACCATAT
424 CCTTCTATTTTAATCTCCTATCTTGTCCAATTGTTACCCTATCTTTCACTTCTTTACTACCACAC
13185891 CAGAGCATGGACTTCCTACATTAAGGATTAAATGAGTTAAGTTTAAAGGCAGGAGGTTTAGTGAG
489 CAGAGCATGGACTTCCTACATTAAGGATTAAATGAGTTAAGTTTAAAGGCAGGAGGTTTAGTGAG
* *
13185956 AAATCCTCGGCCAGTTGAGAAACCCTCGGTCGGCTAATAACCAAATCCCAAGGTCGCTTCAGCGA
554 AAATCCTCGACCAGTTGAGAAACCCTCGGTCGGCTAATAACCAAATCCCAAGGTCGCTGCAGCGA
* * * *
13186021 GAAACTCTCGGGTTTGAGAACCTTCACCCGAATCGGTTCTCACTGCAGCGAGAATGTATTTCGCT
619 GAAACTCTCGGGTTTGAAAACCTTCACCAGAATCGGTTCTCACTACAGCGAGAATGTATTTCACT
* * * * *
13186086 GCAGCGAGATAGTCACTGTCGCTTCTCGTTGCAGCGAAAAAGGTATCTCGCTGTAGCGAAAAACA
684 GCAGCGAGATAGTCACTGTAGCTTCTCGTTGCAGCAAAAAAAGAATCTCGCTGCAGCGAAAAACA
*
13186151 CTCTATTTCATCAACTAAATTTCAC
749 CTCTATTTCATCAACGAAATTTCAC
* *
13186176 CGCAGCGAGAAAAAATCTCGCTGCAGCGAAAAACCTTCTGTTTGGGTCTCCTATCTTGTCCAATT
1 CGCAGCGAGAAAAAATCTCGCTGCAGCGAAAAACCTTCTATTTGGGTCTCCTATCTTCTCCAATT
*
13186241 GTTGCCCTATCTTTCACTTATTTACTACCATAAT-AGAGCATGGACTTCCTACATTAAGGATTAA
66 GTTGCCCTATCTTTCACTTATTTACTACCAT-ATCAGAGCATGGACTTCCTACATTAAGGATAAA
* * *
13186305 ATGAGTTAAGTTTAAAGTGAGGAGGTTTAGTGAGAAATCCT-C-G-G-TCGGCTAATAACCAAAT
130 ATGAGTTAAGTTTAAAGGGAGAAGGTTTAGTGAGAAATCCTCCTGAGATCGACTAATAACCAAAT
* *
13186366 CCTAAGGTCGCTGCAGCGAGAAACTCTCAGGTTTGAGAACCTTCACCAGAACCGGTTCTCGCTAT
195 CCCAAGGTCACTGCAGCGAGAAACTCTCAGGTTTGAGAACCTTCACC---A---------G--A-
* *
13186431 AGCAAGAATGTATTTCGCTGTAGCGAGATAGTCACTATAGCTTCTCGTTACAGCGAAAAAGGTAT
245 A-C-AG-A--T-TCTCGCTGCAGCGAGATAGTCACTATAGCTTCTCGTTACAGCGAAAAAGGTAT
*
13186496 CTCGCTGCGGCGAAAAACA-CTATTTCATCAGCGAAATTT-C-A-C-C-GCAGCGAGAAACATTC
304 CTCGCTGCAGCGAAAAACACCTATTTCATCAGCGAAATTTCCAATCGCTGCAGCGAGAAACATTC
*
13186555 TGTTTTTGGGTTACAATTTCATCGCAGCAAGAAAGAATCTCGCTGCAGTG-AAAACCTTCTGTTT
369 TGTTTTTGGGTTACAATTTCATCGCAGCAAGAAAGAATCTCGCTGCAGTGAAAAACCTTCTATTT
* * *
13186619 TAATCTCCTATCTTGTCCAATTGTTGCCCTATCTTTTACTTCTTTACTACCACACCTGAGCATGG
434 TAATCTCCTATCTTGTCCAATTGTTACCCTATCTTTCACTTCTTTACTACCACACCAGAGCATGG
*
13186684 ACTTCCTACATTAAGGATTAAATGAGTTAAGTTTAAAGGGAGGAGGTTTAGTGAGAAATCCTCGA
499 ACTTCCTACATTAAGGATTAAATGAGTTAAGTTTAAAGGCAGGAGGTTTAGTGAGAAATCCTCGA
13186749 CCAGTTGAGAAACCCTCGGTCGGCTAATAACCAAATCCCAACATCGTTGCAACGGAAAGGCATTC
564 CCAGTTGAGAAACCCTCGGTCGGCTAAT-----AA--CCAA-ATC----C--C---AAGG-----
* * *
13186814 TCGCTGCAGCGAGAAACTCTTGGGTTTGAAAACCTTCACTAGAA-CTGGTTCTCGCTACAGCGAG
607 TCGCTGCAGCGAGAAACTCTCGGGTTTGAAAACCTTCACCAGAATC-GGTTCTCACTACAGCGAG
*
13186878 AATGTATTTCACTGCAGCGAGATAGTCACTGTAGCTTCTCGTTGCAGCAAAAAAAGAATCTCGTT
671 AATGTATTTCACTGCAGCGAGATAGTCACTGTAGCTTCTCGTTGCAGCAAAAAAAGAATCTCGCT
* * *
13186943 GCAGCGAAAAACTCTCTGTTTCATCAGCGAAATTTCAC
736 GCAGCGAAAAACACTCTATTTCATCAACGAAATTTCAC
*
13186981 CGTAGCGAGAAA
1 CGCAGCGAGAAA
13186993 CCTTCTGTTT
Statistics
Matches: 720, Mismatches: 52, Indels: 90
0.84 0.06 0.10
Matches are distributed among these distances:
783 162 0.22
784 62 0.09
785 1 0.00
786 61 0.08
788 2 0.00
789 2 0.00
790 4 0.01
791 3 0.00
795 1 0.00
796 1 0.00
797 3 0.00
798 1 0.00
800 5 0.01
801 2 0.00
802 1 0.00
803 2 0.00
804 2 0.00
805 335 0.47
806 3 0.00
807 67 0.09
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (773 bp):
CGCAGCGAGAAAAAATCTCGCTGCAGCGAAAAACCTTCTATTTGGGTCTCCTATCTTCTCCAATT
GTTGCCCTATCTTTCACTTATTTACTACCATATCAGAGCATGGACTTCCTACATTAAGGATAAAA
TGAGTTAAGTTTAAAGGGAGAAGGTTTAGTGAGAAATCCTCCTGAGATCGACTAATAACCAAATC
CCAAGGTCACTGCAGCGAGAAACTCTCAGGTTTGAGAACCTTCACCAGAACAGATTCTCGCTGCA
GCGAGATAGTCACTATAGCTTCTCGTTACAGCGAAAAAGGTATCTCGCTGCAGCGAAAAACACCT
ATTTCATCAGCGAAATTTCCAATCGCTGCAGCGAGAAACATTCTGTTTTTGGGTTACAATTTCAT
CGCAGCAAGAAAGAATCTCGCTGCAGTGAAAAACCTTCTATTTTAATCTCCTATCTTGTCCAATT
GTTACCCTATCTTTCACTTCTTTACTACCACACCAGAGCATGGACTTCCTACATTAAGGATTAAA
TGAGTTAAGTTTAAAGGCAGGAGGTTTAGTGAGAAATCCTCGACCAGTTGAGAAACCCTCGGTCG
GCTAATAACCAAATCCCAAGGTCGCTGCAGCGAGAAACTCTCGGGTTTGAAAACCTTCACCAGAA
TCGGTTCTCACTACAGCGAGAATGTATTTCACTGCAGCGAGATAGTCACTGTAGCTTCTCGTTGC
AGCAAAAAAAGAATCTCGCTGCAGCGAAAAACACTCTATTTCATCAACGAAATTTCAC
Found at i:13187199 original size:444 final size:441
Alignment explanation
Indices: 13186373--13187234 Score: 1330
Period size: 444 Copynumber: 1.9 Consensus size: 441
13186363 AATCCTAAGG
* *
13186373 TCGCTGCAGCGAGAAACTCTCAGGTTTGAGAACCTTCACCAGAACCGGTTCTCGCTATAGCAAGA
1 TCGCTGCAGCGAGAAACTCTCAGGTTTGAAAACCTTCACCAGAACCGGTTCTCGCTACAGCAAGA
* * * * *
13186438 ATGTATTTCGCTGTAGCGAGATAGTCACTATAGCTTCTCGTTACAGCGAAAAAGGTATCTCGCTG
66 ATGTATTTCACTGCAGCGAGATAGTCACTATAGCTTCTCGTTACAGCAAAAAAAGAATCTCGCTG
* *
13186503 CGGCGAAAAACACTATTTCATCAGCGAAATTTCACCGCAGCGAGAAACATTCTGTTTTTGGGTTA
131 CAGCGAAAAACACTATTTCATCAGCGAAATTTCACCGCAGCGAGAAACATTCTGTTTCTGGGTTA
* * * *
13186568 CAATTTCATCGCAGCAAGAAAGAATCTCGCTGCAGTGAAAACCTTCTGTTTTAATCTCCTATCTT
196 CAATTTCACCGCAACAAGAAAGAATCTCACTGCAGTAAAAACCTTCTGTTTTAATCTCCTATCTT
* * **
13186633 GTCCAATTGTTGCCCTATCTTTTACTTCTTTACTACCACACCTGAGCATGGACTTCCTACATTAA
261 GTCCAATTGCTGCCCTATCTTTCACTTCTTTACTACCACACCAAAGCATGGACTTCCTACATTAA
*
13186698 GGATTAAATGAGTTAAGTTTAAAGGGAGGAGGTTTAGTGAGAAATCCTCGACCAGTTGAGAAACC
326 GGATCAAATGAGTTAAGTTTAAAGGGAGGAGGTTTAGTGAGAAATCCTCGACCAGTTGAGAAACC
*
13186763 CTCGGTCGGCTAATAACCAAATCCCAACATCGTTGCAACGGAAAGGCATTC
391 CTCGATCGGCTAATAACCAAATCCCAACATCGTTGCAACGGAAAGGCATTC
** * * *
13186814 TCGCTGCAGCGAGAAACTCTTGGGTTTGAAAACCTTCACTAGAACTGGTTCTCGCTACAGCGAGA
1 TCGCTGCAGCGAGAAACTCTCAGGTTTGAAAACCTTCACCAGAACCGGTTCTCGCTACAGCAAGA
* * *
13186879 ATGTATTTCACTGCAGCGAGATAGTCACTGTAGCTTCTCGTTGCAGCAAAAAAAGAATCTCGTTG
66 ATGTATTTCACTGCAGCGAGATAGTCACTATAGCTTCTCGTTACAGCAAAAAAAGAATCTCGCTG
* * * *
13186944 CAGCGAAAAACTCTCTGTTTCATCAGCGAAATTTCACCGTAGCGAGAAACCTTCTGTTTCTGGGT
131 CAGCGAAAAA--CACTATTTCATCAGCGAAATTTCACCGCAGCGAGAAACATTCTGTTTCTGGGT
* * **
13187009 TACAATTT-AGCCGCAACGATAAAGAATCTCACTGCAGTAAAAAACCTTCTGTTTTGGTCTCCTA
194 TACAATTTCA-CCGCAACAAGAAAGAATCTCACTGCAGT-AAAAACCTTCTGTTTTAATCTCCTA
* *
13187073 TCTTGTCCAATTGCTGCCCTATCTTTCACTTCTTTACTACCATATCAAAGCATGGACTTCCTACA
257 TCTTGTCCAATTGCTGCCCTATCTTTCACTTCTTTACTACCACACCAAAGCATGGACTTCCTACA
*
13187138 TTAATGATCAAATGAGTTAAGTTTAAAGGGAGGAGGTTTAGTGAGAAATCCTCGACCAGTTGAGA
322 TTAAGGATCAAATGAGTTAAGTTTAAAGGGAGGAGGTTTAGTGAGAAATCCTCGACCAGTTGAGA
*
13187203 AACCCTCGATTGGCTAATAACCAAATCCCAAC
387 AACCCTCGATCGGCTAATAACCAAATCCCAAC
13187235 GTCGCTACAG
Statistics
Matches: 378, Mismatches: 39, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
441 124 0.33
442 1 0.00
443 79 0.21
444 174 0.46
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.28
Consensus pattern (441 bp):
TCGCTGCAGCGAGAAACTCTCAGGTTTGAAAACCTTCACCAGAACCGGTTCTCGCTACAGCAAGA
ATGTATTTCACTGCAGCGAGATAGTCACTATAGCTTCTCGTTACAGCAAAAAAAGAATCTCGCTG
CAGCGAAAAACACTATTTCATCAGCGAAATTTCACCGCAGCGAGAAACATTCTGTTTCTGGGTTA
CAATTTCACCGCAACAAGAAAGAATCTCACTGCAGTAAAAACCTTCTGTTTTAATCTCCTATCTT
GTCCAATTGCTGCCCTATCTTTCACTTCTTTACTACCACACCAAAGCATGGACTTCCTACATTAA
GGATCAAATGAGTTAAGTTTAAAGGGAGGAGGTTTAGTGAGAAATCCTCGACCAGTTGAGAAACC
CTCGATCGGCTAATAACCAAATCCCAACATCGTTGCAACGGAAAGGCATTC
Found at i:13194271 original size:42 final size:42
Alignment explanation
Indices: 13194207--13194286 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
13194197 TTTTACTAGG
*
13194207 TACTAAAAGTTTATAACAAATCAATCTTATTTAAGTAACTGA
1 TACTAAAAGTTTATAACAAATCAATATTATTTAAGTAACTGA
* **
13194249 TACTAAAATTTTATAATGAATCAATATTATTTAAGTAA
1 TACTAAAAGTTTATAACAAATCAATATTATTTAAGTAA
13194287 TTGAGATTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.39
Consensus pattern (42 bp):
TACTAAAAGTTTATAACAAATCAATATTATTTAAGTAACTGA
Found at i:13197516 original size:24 final size:24
Alignment explanation
Indices: 13197489--13197536 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
13197479 AATTTGGGGG
*
13197489 AAAAA-TATGTAACTTTCCCTTTGC
1 AAAAAGTAAGTAACTTT-CCTTTGC
*
13197513 AAAAAGTAAGTTACTTTCCTTTGC
1 AAAAAGTAAGTAACTTTCCTTTGC
13197537 GAAGGAAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (24 bp):
AAAAAGTAAGTAACTTTCCTTTGC
Found at i:13202844 original size:17 final size:18
Alignment explanation
Indices: 13202822--13202864 Score: 72
Period size: 17 Copynumber: 2.5 Consensus size: 18
13202812 TACATCCACT
13202822 CAAGATTAT-AACTACCA
1 CAAGATTATCAACTACCA
13202839 CAAGATT-TCAACTACCA
1 CAAGATTATCAACTACCA
13202856 CAAGATTAT
1 CAAGATTAT
13202865 TATAGTATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.04
17 22 0.92
18 1 0.04
ACGTcount: A:0.44, C:0.23, G:0.07, T:0.26
Consensus pattern (18 bp):
CAAGATTATCAACTACCA
Found at i:13205074 original size:11 final size:13
Alignment explanation
Indices: 13205048--13205079 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
13205038 GAGAGAAAGG
13205048 GAGATTTGTAAGA
1 GAGATTTGTAAGA
13205061 GAGATTTGTAAGA
1 GAGATTTGTAAGA
13205074 GAGATT
1 GAGATT
13205080 ATAGATCTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (13 bp):
GAGATTTGTAAGA
Found at i:13206931 original size:37 final size:37
Alignment explanation
Indices: 13206862--13206933 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
13206852 ATAATGTTAA
*
13206862 AATAATTATTTTATTTCATTAATTAAATTAATTATAT
1 AATAATTATTTTATTTCATTAATTAAAATAATTATAT
* **
13206899 AATAATTATTTT-TTTTATTTTTATAAAATAATTAT
1 AATAATTATTTTATTTCATTAAT-TAAAATAATTAT
13206934 TTTATTCTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 7 0.23
37 23 0.77
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (37 bp):
AATAATTATTTTATTTCATTAATTAAAATAATTATAT
Found at i:13218287 original size:12 final size:13
Alignment explanation
Indices: 13218260--13218292 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
13218250 TTCCATAAAT
*
13218260 CAAAAAAGATACC
1 CAAAAAAAATACC
13218273 CAAAAAAAATA-C
1 CAAAAAAAATACC
13218285 CAAAAAAA
1 CAAAAAAA
13218293 TCTAGCAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.73, C:0.18, G:0.03, T:0.06
Consensus pattern (13 bp):
CAAAAAAAATACC
Found at i:13219535 original size:9 final size:9
Alignment explanation
Indices: 13219521--13219569 Score: 64
Period size: 9 Copynumber: 5.4 Consensus size: 9
13219511 AAAATTATTC
13219521 AATAAAAAT
1 AATAAAAAT
*
13219530 AATAAATA-
1 AATAAAAAT
13219538 AATAAAAAT
1 AATAAAAAT
13219547 AATAAAAAAT
1 AAT-AAAAAT
*
13219557 GATAAAAAT
1 AATAAAAAT
13219566 AATA
1 AATA
13219570 TTAATAATTC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
8 7 0.21
9 19 0.56
10 8 0.24
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (9 bp):
AATAAAAAT
Found at i:13219543 original size:17 final size:17
Alignment explanation
Indices: 13219521--13219569 Score: 71
Period size: 17 Copynumber: 2.8 Consensus size: 17
13219511 AAAATTATTC
*
13219521 AATAAAAATAATAAATA
1 AATAAAAATAATAAAAA
13219538 AATAAAAATAATAAAAA
1 AATAAAAATAATAAAAA
13219555 ATGATAAAAATAATA
1 A--ATAAAAATAATA
13219570 TTAATAATTC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 17 0.59
19 12 0.41
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (17 bp):
AATAAAAATAATAAAAA
Found at i:13219650 original size:22 final size:20
Alignment explanation
Indices: 13219624--13219666 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
13219614 AATATACATG
13219624 ACATTAAATAAATAGAAAAATA
1 ACATTAAA-AAATA-AAAAATA
*
13219646 ACATTAAAAAATAAATAATA
1 ACATTAAAAAATAAAAAATA
13219666 A
1 A
13219667 TAAAAAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 5 0.25
22 8 0.40
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (20 bp):
ACATTAAAAAATAAAAAATA
Found at i:13219866 original size:17 final size:15
Alignment explanation
Indices: 13219846--13219881 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 15
13219836 TTGCTTACGA
13219846 AAAAATATAATAATAAT
1 AAAAATATAA-AA-AAT
13219863 AAAAATATAAAAAAT
1 AAAAATATAAAAAAT
13219878 AAAA
1 AAAA
13219882 TAAAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.37
16 2 0.11
17 10 0.53
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (15 bp):
AAAAATATAAAAAAT
Found at i:13219889 original size:17 final size:17
Alignment explanation
Indices: 13219845--13219893 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
13219835 TTTGCTTACG
*
13219845 AAAAAATATAATAATAAT
1 AAAAAATA-AAAAATAAT
13219863 AAAAATATAAAAAATAA-
1 AAAAA-ATAAAAAATAAT
13219880 AATAAAATAAAAAA
1 AA-AAAATAAAAAA
13219894 GAATCAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 10 0.36
18 15 0.54
19 3 0.11
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (17 bp):
AAAAAATAAAAAATAAT
Found at i:13219902 original size:26 final size:26
Alignment explanation
Indices: 13219844--13219896 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
13219834 GTTTGCTTAC
*
13219844 GAAAAAATATAATAATAATAAAAATA
1 GAAAAAATAAAATAATAATAAAAATA
*
13219870 TAAAAAATAAAATAA-AATAAAAA-A
1 GAAAAAATAAAATAATAATAAAAATA
13219894 GAA
1 GAA
13219897 TCAAAAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 3 0.12
25 8 0.33
26 13 0.54
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (26 bp):
GAAAAAATAAAATAATAATAAAAATA
Found at i:13220018 original size:18 final size:19
Alignment explanation
Indices: 13219995--13220030 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13219985 ATTTAGAATT
*
13219995 AAAATG-TAAGGTATAAAG
1 AAAATGATAAGGAATAAAG
13220013 AAAATGATAAGGAATAAA
1 AAAATGATAAGGAATAAA
13220031 ATAGAAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.61, C:0.00, G:0.19, T:0.19
Consensus pattern (19 bp):
AAAATGATAAGGAATAAAG
Found at i:13220072 original size:6 final size:5
Alignment explanation
Indices: 13220046--13220093 Score: 53
Period size: 5 Copynumber: 9.2 Consensus size: 5
13220036 AAAACACGAT
*
13220046 AATAA AA-AA AATAA AATAA AATGAA AATAA CAATTA AATAA TAATAA
1 AATAA AATAA AATAA AATAA AAT-AA AATAA -AATAA AATAA -AATAA
13220093 A
1 A
13220094 TGAAAAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
4 4 0.11
5 19 0.51
6 14 0.38
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:13220072 original size:11 final size:10
Alignment explanation
Indices: 13220046--13220093 Score: 53
Period size: 11 Copynumber: 4.6 Consensus size: 10
13220036 AAAACACGAT
13220046 AATAAAA-AA
1 AATAAAATAA
13220055 AATAAAATAA
1 AATAAAATAA
13220065 AATGAAAATAA
1 AAT-AAAATAA
*
13220076 CAATTAAATAA
1 -AATAAAATAA
13220087 TAATAAA
1 -AATAAA
13220094 TGAAAAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 7 0.21
10 5 0.15
11 18 0.55
12 3 0.09
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (10 bp):
AATAAAATAA
Found at i:13229045 original size:31 final size:29
Alignment explanation
Indices: 13229004--13229163 Score: 124
Period size: 31 Copynumber: 5.2 Consensus size: 29
13228994 AACCTTTAAC
13229004 ACACTACCTTTTCTTGAGGAGGTATAATCTT
1 ACACTACCTTTTC-T-AGGAGGTATAATCTT
* *
13229035 TCTCTACCTTTTCAATA-GAGGTATAATCTT
1 ACACTACCTTTTC--TAGGAGGTATAATCTT
* *
13229065 ACACTCCCTTTTACAATGGAGGTATAATCTT
1 ACACTACCTTTT-CTA-GGAGGTATAATCTT
*** * *
13229096 ACACTTTTTTTTACAGAGGAGGTATAACCTT
1 ACACTACCTTTT-C-TAGGAGGTATAATCTT
* * *
13229127 TCTCTACCTTTTCTATGGAGGTATAACCTT
1 ACACTACCTTTTCTA-GGAGGTATAATCTT
13229157 ACACTAC
1 ACACTAC
13229164 TGGTTGCAAT
Statistics
Matches: 103, Mismatches: 20, Indels: 13
0.76 0.15 0.10
Matches are distributed among these distances:
29 2 0.02
30 42 0.41
31 57 0.55
32 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (29 bp):
ACACTACCTTTTCTAGGAGGTATAATCTT
Found at i:13229145 original size:61 final size:61
Alignment explanation
Indices: 13229047--13229218 Score: 177
Period size: 61 Copynumber: 2.8 Consensus size: 61
13229037 TCTACCTTTT
* * * * * * ** **
13229047 CAATAGAGGTATAATCTTACACTCCCTTTTACAATGGAGGTATAATCTTACACTTTTTTTTA
1 CAATGGAGGTATAACCTTTCTCTACCTTTTAC-ATGGAGGTATAACCTTACACTACTGGTTA
*
13229109 CAGA-GGAGGTATAACCTTTCTCTACCTTTT-CTATGGAGGTATAACCTTACACTACTGGTTG
1 CA-ATGGAGGTATAACCTTTCTCTACCTTTTAC-ATGGAGGTATAACCTTACACTACTGGTTA
* *
13229170 CAATGGAGGTATAACCGTTCTCTACCTTTTGCAGTGGAGGTATAACCTT
1 CAATGGAGGTATAACCTTTCTCTACCTTTTACA-TGGAGGTATAACCTT
13229219 GGAACAATGG
Statistics
Matches: 93, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
60 1 0.01
61 52 0.56
62 39 0.42
63 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (61 bp):
CAATGGAGGTATAACCTTTCTCTACCTTTTACATGGAGGTATAACCTTACACTACTGGTTA
Found at i:13229179 original size:31 final size:30
Alignment explanation
Indices: 13229021--13229218 Score: 116
Period size: 31 Copynumber: 6.5 Consensus size: 30
13229011 CTTTTCTTGA
* * *
13229021 GGAGGTATAATCTTTCTCTACCT-TTTCAAT
1 GGAGGTATAA-CCTTCACTACCTGTTGCAAT
* * * * *
13229051 AGAGGTATAATCTTACACTCCCTTTTACAAT
1 GGAGGTATAACCTT-CACTACCTGTTGCAAT
* *** * *
13229082 GGAGGTATAATCTTACACTTTTTTTTACAGA-
1 GGAGGTATAACCTT-CACTACCTGTTGCA-AT
* * *
13229113 GGAGGTATAACCTTTCTCTACCT-TTTCTAT
1 GGAGGTATAACC-TTCACTACCTGTTGCAAT
13229143 GGAGGTATAACCTTACACTA-CTGGTTGCAAT
1 GGAGGTATAACCTT-CACTACCT-GTTGCAAT
* * *
13229174 GGAGGTATAACCGTTCTCTACCTTTTGCAGT
1 GGAGGTATAACC-TTCACTACCTGTTGCAAT
13229205 GGAGGTATAACCTT
1 GGAGGTATAACCTT
13229219 GGAACAATGG
Statistics
Matches: 135, Mismatches: 23, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
29 7 0.05
30 36 0.27
31 85 0.63
32 7 0.05
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (30 bp):
GGAGGTATAACCTTCACTACCTGTTGCAAT
Found at i:13229209 original size:92 final size:92
Alignment explanation
Indices: 13229004--13229218 Score: 247
Period size: 92 Copynumber: 2.3 Consensus size: 92
13228994 AACCTTTAAC
* * *
13229004 ACACTACCTTTT-CTTGAGGAGGTATAATCTTTCTCTACCTTTTCAATAGAGGTATAATCTTACA
1 ACACTACCTTTTAC-AGAGGAGGTATAACCTTTCTCTACCTTTTCAATAGAGGTATAACCTTACA
* * *
13229068 CTCCCTTTTACAATGGAGGTATAATCTT
65 CTCACTGTTACAATGGAGGTATAACCTT
*** * *
13229096 ACACTTTTTTTTACAGAGGAGGTATAACCTTTCTCTACCTTTTCTATGGAGGTATAACCTTACAC
1 ACACTACCTTTTACAGAGGAGGTATAACCTTTCTCTACCTTTTCAATAGAGGTATAACCTTACAC
*
13229161 T-ACTGGTTGCAATGGAGGTATAACCGTT
66 TCACT-GTTACAATGGAGGTATAACC-TT
* * *
13229189 -CTCTACCTTTTGCAGTGGAGGTATAACCTT
1 ACACTACCTTTTACAGAGGAGGTATAACCTT
13229219 GGAACAATGG
Statistics
Matches: 102, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
91 2 0.02
92 97 0.95
93 3 0.03
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (92 bp):
ACACTACCTTTTACAGAGGAGGTATAACCTTTCTCTACCTTTTCAATAGAGGTATAACCTTACAC
TCACTGTTACAATGGAGGTATAACCTT
Found at i:13229885 original size:16 final size:17
Alignment explanation
Indices: 13229856--13229888 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
13229846 CCTGCTTCAT
13229856 TCTTGTTTTATTCTCCA
1 TCTTGTTTTATTCTCCA
*
13229873 TCTT-TTTTCTTCTCCA
1 TCTTGTTTTATTCTCCA
13229889 AGTTTCTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.09, C:0.27, G:0.03, T:0.61
Consensus pattern (17 bp):
TCTTGTTTTATTCTCCA
Found at i:13232721 original size:21 final size:22
Alignment explanation
Indices: 13232696--13232736 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
13232686 CCTAGGTGGA
*
13232696 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
13232717 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
13232737 AAAAAAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:13232737 original size:20 final size:21
Alignment explanation
Indices: 13232696--13232740 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
13232686 CCTAGGTGGA
*
13232696 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGGAAAAGAGTG
13232717 AAAATTCAA-GGAAACA-AGTG
1 AAAATTCAAGGGAAA-AGAGTG
13232737 AAAA
1 AAAA
13232741 AAAGGTAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.56, C:0.07, G:0.22, T:0.16
Consensus pattern (21 bp):
AAAATTCAAGGGAAAAGAGTG
Found at i:13232741 original size:21 final size:20
Alignment explanation
Indices: 13232694--13232741 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
13232684 ACCCTAGGTG
*
13232694 GAAAAATTCAAGGGAAAAGT
1 GAAAAATTCAAGGAAAAAGT
*
13232714 GTGAAAATTCAAGGAAACAAGT
1 G-AAAAATTCAAGGAAA-AAGT
13232736 GAAAAA
1 GAAAAA
13232742 AAGGTAAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.56, C:0.06, G:0.23, T:0.15
Consensus pattern (20 bp):
GAAAAATTCAAGGAAAAAGT
Found at i:13238638 original size:43 final size:42
Alignment explanation
Indices: 13238573--13238694 Score: 138
Period size: 43 Copynumber: 2.9 Consensus size: 42
13238563 CACTCTGCTT
* ***
13238573 ATGTGCACTCCCTACTTGCACATAGCTGGGTCATCATCAGGTC
1 ATGTGCACTCCC-ACATGCACATAGCTGGGTCATCATCAACAC
* * * *
13238616 ATGTGCGCTCCCGCACCT-CACATAGTTGGGTCATTATCAACAC
1 ATGTGCACT-CC-CACATGCACATAGCTGGGTCATCATCAACAC
13238659 ATGTGCACTCCCACATGCACATAGCTGGGTCATCAT
1 ATGTGCACTCCCACATGCACATAGCTGGGTCATCAT
13238695 TATCACACAA
Statistics
Matches: 65, Mismatches: 11, Indels: 7
0.78 0.13 0.08
Matches are distributed among these distances:
41 4 0.06
42 19 0.29
43 36 0.55
44 5 0.08
45 1 0.02
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (42 bp):
ATGTGCACTCCCACATGCACATAGCTGGGTCATCATCAACAC
Found at i:13240302 original size:20 final size:20
Alignment explanation
Indices: 13240252--13240302 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
13240242 TTTTTAGATG
*
13240252 CAAATAGTTTAGTTTAGGTA
1 CAAATAGTTAAGTTTAGGTA
* *
13240272 GAATTAGGTTAAG-TTAGGTTA
1 CAAATA-GTTAAGTTTAGG-TA
13240293 CAAATAGTTA
1 CAAATAGTTA
13240303 GCTTAAGGAG
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (20 bp):
CAAATAGTTAAGTTTAGGTA
Found at i:13242874 original size:20 final size:20
Alignment explanation
Indices: 13242829--13242866 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
13242819 TTTTGGCCTC
*
13242829 ATTTGACTTATTGGAGTATA
1 ATTTGACTCATTGGAGTATA
13242849 ATTTGACTCATTGGAGTA
1 ATTTGACTCATTGGAGTA
13242867 AGATTTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (20 bp):
ATTTGACTCATTGGAGTATA
Found at i:13242956 original size:28 final size:27
Alignment explanation
Indices: 13242919--13242971 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
13242909 TTTAGAGTAA
*
13242919 AAGGGTAAAATAGTAATTTTGCCACCCC
1 AAGGGCAAAATAGTAATTTT-CCACCCC
*
13242947 AAGGGCAAAATTGTAATTTTCCACC
1 AAGGGCAAAATAGTAATTTTCCACC
13242972 ACCAGGACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (27 bp):
AAGGGCAAAATAGTAATTTTCCACCCC
Found at i:13244139 original size:13 final size:13
Alignment explanation
Indices: 13244121--13244145 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13244111 AGAGAAATTG
13244121 TGATTTTATAAAA
1 TGATTTTATAAAA
13244134 TGATTTTATAAA
1 TGATTTTATAAA
13244146 TTTTCTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:13248433 original size:55 final size:55
Alignment explanation
Indices: 13248339--13248475 Score: 211
Period size: 55 Copynumber: 2.5 Consensus size: 55
13248329 ATGTATACAA
*
13248339 CCACCGGCTCATCAGCTTATGTGCACTCCCACACCGCACATAGCTAGAATCATCAT
1 CCACCGG-TCATCAGCTTATGTGCACTCCCACACCGCACATAGCTAGAATCATCAC
* * * *
13248395 TCATCGGTCATCAGCTTATGTGCACTCCCACACTGCACATAGCTGGAATCATCAC
1 CCACCGGTCATCAGCTTATGTGCACTCCCACACCGCACATAGCTAGAATCATCAC
*
13248450 CCACCGGTCATCAGCTCATGTGCACT
1 CCACCGGTCATCAGCTTATGTGCACT
13248476 TCCGCATCGC
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
55 68 0.93
56 5 0.07
ACGTcount: A:0.25, C:0.36, G:0.16, T:0.23
Consensus pattern (55 bp):
CCACCGGTCATCAGCTTATGTGCACTCCCACACCGCACATAGCTAGAATCATCAC
Found at i:13248497 original size:55 final size:54
Alignment explanation
Indices: 13248339--13248500 Score: 207
Period size: 55 Copynumber: 2.9 Consensus size: 54
13248329 ATGTATACAA
* *
13248339 CCACCGGCTCATCAGCTTATGTGCACTCCCACACCGCACATAGCTAGAATCATCAT
1 CCACCGG-TCATCAGCTTATGTGCACTCCCACA-CGCACATAGCTGGAATCATCAC
* *
13248395 TCATCGGTCATCAGCTTATGTGCACTCCCACACTGCACATAGCTGGAATCATCAC
1 CCACCGGTCATCAGCTTATGTGCACTCCCACAC-GCACATAGCTGGAATCATCAC
* * * * *
13248450 CCACCGGTCATCAGCTCATGTGCACTTCCGCATCGCATATAGTTGGAATCA
1 CCACCGGTCATCAGCTTATGTGCACTCCCACA-CGCACATAGCTGGAATCA
13248501 CCCGTCATCA
Statistics
Matches: 93, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
54 1 0.01
55 86 0.92
56 6 0.06
ACGTcount: A:0.25, C:0.34, G:0.17, T:0.24
Consensus pattern (54 bp):
CCACCGGTCATCAGCTTATGTGCACTCCCACACGCACATAGCTGGAATCATCAC
Found at i:13252217 original size:23 final size:23
Alignment explanation
Indices: 13252191--13252234 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
13252181 TTATCAGTGT
13252191 CTCA-TATTTCATCTAGCTTTTCA
1 CTCACTATTTCAT-TAGCTTTTCA
* *
13252214 CTCACTTTTTCCTTAGCTTTT
1 CTCACTATTTCATTAGCTTTT
13252235 AACAAGGCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 12 0.67
24 6 0.33
ACGTcount: A:0.16, C:0.27, G:0.05, T:0.52
Consensus pattern (23 bp):
CTCACTATTTCATTAGCTTTTCA
Found at i:13253945 original size:2 final size:2
Alignment explanation
Indices: 13253938--13253975 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
13253928 TCAATACACA
13253938 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
13253976 CAACATAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13261190 original size:81 final size:81
Alignment explanation
Indices: 13261096--13261340 Score: 395
Period size: 81 Copynumber: 3.0 Consensus size: 81
13261086 ATAGCTGGAG
* *
13261096 TCATCGTGTGCACCCCCACATCGCGCACAACTAATGCCATCATGTGCTCCCCCTACATCGCGCGC
1 TCATCGTGTGCACCCCCACATCGCGCACAACTAATGCCATCATGTGCTCCCCCCACATCGCGCAC
13261161 ATGGCATATATCATCA
66 ATGGCATATATCATCA
*
13261177 TCATCGTGTGCACCCTCACATCGCGCACAACTAATGCCATCATGTGCTCCCCCCACATCGCGCAC
1 TCATCGTGTGCACCCCCACATCGCGCACAACTAATGCCATCATGTGCTCCCCCCACATCGCGCAC
*
13261242 ATGGCATATATCATTA
66 ATGGCATATATCATCA
* *
13261258 TCATCGTGTGCACCCCCACATCGTGCACAACTAAGGCCATCAAT-TGCTCCCCCCACATCGCGCA
1 TCATCGTGTGCACCCCCACATCGCGCACAACTAATGCCATC-ATGTGCTCCCCCCACATCGCGCA
*
13261322 CATAGGCA-ATCTCATCA
65 CAT-GGCATATATCATCA
13261339 TC
1 TC
13261341 CACACTCCCT
Statistics
Matches: 153, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
81 147 0.96
82 6 0.04
ACGTcount: A:0.24, C:0.38, G:0.15, T:0.22
Consensus pattern (81 bp):
TCATCGTGTGCACCCCCACATCGCGCACAACTAATGCCATCATGTGCTCCCCCCACATCGCGCAC
ATGGCATATATCATCA
Found at i:13261199 original size:44 final size:44
Alignment explanation
Indices: 13261133--13261286 Score: 155
Period size: 44 Copynumber: 3.6 Consensus size: 44
13261123 CAACTAATGC
* * *
13261133 CATCATGTGCTCCCCCTACATCGCGCGCATGGCATATATCATCAT
1 CATCGTGTGCACCCCC-ACATCGCGCACATGGCATATATCATCAT
* *
13261178 CATCGTGTGCACCCTCACATCGCGCACA--AC-TA-ATGC--CAT
1 CATCGTGTGCACCCCCACATCGCGCACATGGCATATAT-CATCAT
*
13261217 CAT-GTGCT-C-CCCCCACATCGCGCACATGGCATATATCATTAT
1 CATCGTG-TGCACCCCCACATCGCGCACATGGCATATATCATCAT
*
13261259 CATCGTGTGCACCCCCACATCGTGCACA
1 CATCGTGTGCACCCCCACATCGCGCACA
13261287 ACTAAGGCCA
Statistics
Matches: 89, Mismatches: 9, Indels: 23
0.74 0.07 0.19
Matches are distributed among these distances:
37 16 0.18
38 4 0.04
39 8 0.09
40 5 0.06
41 5 0.06
42 7 0.08
43 4 0.04
44 27 0.30
45 13 0.15
ACGTcount: A:0.23, C:0.38, G:0.16, T:0.23
Consensus pattern (44 bp):
CATCGTGTGCACCCCCACATCGCGCACATGGCATATATCATCAT
Found at i:13261202 original size:42 final size:42
Alignment explanation
Indices: 13261096--13261280 Score: 121
Period size: 42 Copynumber: 4.5 Consensus size: 42
13261086 ATAGCTGGAG
13261096 TCATCGTGTGCACCCCCACATCGCGCA---CA-ACTA--ATGC-
1 TCATCGTGTGCACCCCCACATCGCGCATGGCATA-TATCAT-CA
* *
13261133 -CATCATGTGCTCCCCCTACATCGCGCGCATGGCATATATCATCA
1 TCATCGTGTGCACCCCC-ACAT--CGCGCATGGCATATATCATCA
* ***
13261177 TCATCGTGTGCACCCTCACATCGCGCACAAC-TA-ATGC--CA
1 TCATCGTGTGCACCCCCACATCGCGCATGGCATATAT-CATCA
*
13261216 TCAT-GTGCT-C-CCCCCACATCGCGCACATGGCATATATCATTA
1 TCATCGTG-TGCACCCCCACATCGCG--CATGGCATATATCATCA
13261258 TCATCGTGTGCACCCCCACATCG
1 TCATCGTGTGCACCCCCACATCG
13261281 TGCACAACTA
Statistics
Matches: 113, Mismatches: 13, Indels: 37
0.69 0.08 0.23
Matches are distributed among these distances:
36 14 0.12
37 16 0.14
38 4 0.04
39 16 0.14
40 5 0.04
41 5 0.04
42 17 0.15
43 6 0.05
44 17 0.15
45 13 0.12
ACGTcount: A:0.23, C:0.38, G:0.16, T:0.23
Consensus pattern (42 bp):
TCATCGTGTGCACCCCCACATCGCGCATGGCATATATCATCA
Found at i:13261235 original size:37 final size:37
Alignment explanation
Indices: 13261108--13261323 Score: 154
Period size: 37 Copynumber: 5.5 Consensus size: 37
13261098 ATCGTGTGCA
13261108 CCCCCACATCGCGCACAACTAATGCCATCATGTGCTC
1 CCCCCACATCGCGCACAACTAATGCCATCATGTGCTC
* * *
13261145 CCCCTACATCGCGCGCATGGCATATAT-CATCATCATCGTG-TGC
1 CCCCCACATCGCGCACA--AC-TA-ATGC--CATCAT-GTGCT-C
*
13261188 ACCCTCACATCGCGCACAACTAATGCCATCATGTGCTC
1 -CCCCCACATCGCGCACAACTAATGCCATCATGTGCTC
* *
13261226 CCCCCACATCGCGCACATGGCATATAT-CATTATCATCGTG-TGC
1 CCCCCACATCGCGCACA--AC-TA-ATGC--CATCAT-GTGCT-C
* *
13261269 ACCCCCACATCGTGCACAACTAAGGCCATCAAT-TGCTC
1 -CCCCCACATCGCGCACAACTAATGCCATC-ATGTGCTC
13261307 CCCCCACATCGCGCACA
1 CCCCCACATCGCGCACA
13261324 TAGGCAATCT
Statistics
Matches: 141, Mismatches: 15, Indels: 46
0.70 0.07 0.23
Matches are distributed among these distances:
37 47 0.33
38 7 0.05
39 13 0.09
40 11 0.08
41 10 0.07
42 15 0.11
43 8 0.06
44 30 0.21
ACGTcount: A:0.25, C:0.40, G:0.15, T:0.21
Consensus pattern (37 bp):
CCCCCACATCGCGCACAACTAATGCCATCATGTGCTC
Found at i:13263034 original size:19 final size:19
Alignment explanation
Indices: 13263025--13263064 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
13263015 TTAATATTTT
*
13263025 AATATTATTTTATTAATAA
1 AATATTATTTTAATAATAA
*
13263044 AATATTATTTT-ATTATAA
1 AATATTATTTTAATAATAA
13263062 AAT
1 AAT
13263065 TTTCACCTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AATATTATTTTAATAATAA
Found at i:13265353 original size:19 final size:19
Alignment explanation
Indices: 13265320--13265356 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
13265310 AGTTAATTTT
13265320 CTTTCATTTTCTTTCCTTG
1 CTTTCATTTTCTTTCCTTG
13265339 CTTTC-TTTTCATTTCCTT
1 CTTTCATTTTC-TTTCCTT
13265357 TCTCTTCTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.05, C:0.27, G:0.03, T:0.65
Consensus pattern (19 bp):
CTTTCATTTTCTTTCCTTG
Found at i:13267118 original size:39 final size:40
Alignment explanation
Indices: 13267075--13267177 Score: 120
Period size: 40 Copynumber: 2.6 Consensus size: 40
13267065 TAGTGCCAAC
* *
13267075 GTGCATGATGTGGGGGGGATGTACACAATGGC-ACTGAT-T
1 GTGCACGATGT-GGGGGGATGTACACAATGGCGACGGATAT
* * ** *
13267114 GTGCACGATGTGAGGGGATGCACATTATGGCGCCGGATAT
1 GTGCACGATGTGGGGGGATGTACACAATGGCGACGGATAT
13267154 GTGCACGATGTGGGGGGATGTACA
1 GTGCACGATGTGGGGGGATGTACA
13267178 TGAGCCGGGT
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
38 16 0.30
39 14 0.26
40 23 0.43
ACGTcount: A:0.22, C:0.15, G:0.40, T:0.23
Consensus pattern (40 bp):
GTGCACGATGTGGGGGGATGTACACAATGGCGACGGATAT
Found at i:13272609 original size:37 final size:37
Alignment explanation
Indices: 13272560--13272715 Score: 287
Period size: 37 Copynumber: 4.2 Consensus size: 37
13272550 TAATGTTGTG
13272560 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
*
13272597 TGATGATGTTGAAGTGTGCAAGTAGGGAGTGCACACA
1 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
13272634 TGATGATGTT-AGAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGTTGA-AGTGTGCGAGTAGGGAGTGCACACA
13272671 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
13272708 TGATGATG
1 TGATGATG
13272716 ATATTGCATT
Statistics
Matches: 115, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
36 1 0.01
37 113 0.98
38 1 0.01
ACGTcount: A:0.28, C:0.10, G:0.37, T:0.25
Consensus pattern (37 bp):
TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
Found at i:13278767 original size:17 final size:18
Alignment explanation
Indices: 13278742--13278778 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
13278732 GCTGCATTGA
13278742 TTTTCTTCT-TTGATTTC
1 TTTTCTTCTATTGATTTC
*
13278759 TTTTGTTCTATTGATTTC
1 TTTTCTTCTATTGATTTC
13278777 TT
1 TT
13278779 CATCTACCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.08, C:0.14, G:0.08, T:0.70
Consensus pattern (18 bp):
TTTTCTTCTATTGATTTC
Found at i:13286661 original size:26 final size:26
Alignment explanation
Indices: 13286623--13286684 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
13286613 ACCATATACC
* *
13286623 CATCATCAACATGCACAGAATCCCAT
1 CATCATCATCATGCACACAATCCCAT
*
13286649 CATCATCATCATGCACACCATCCCAT
1 CATCATCATCATGCACACAATCCCAT
13286675 CATCATCATC
1 CATCATCATC
13286685 TCATATGCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.34, C:0.39, G:0.05, T:0.23
Consensus pattern (26 bp):
CATCATCATCATGCACACAATCCCAT
Found at i:13286727 original size:30 final size:30
Alignment explanation
Indices: 13286691--13286763 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
13286681 CATCTCATAT
13286691 GCAACGGCTTATGCGCATATAGCCGGGTCA
1 GCAACGGCTTATGCGCATATAGCCGGGTCA
*
13286721 GCAACGGCTTATGCGCATATAGTCGGGTCA
1 GCAACGGCTTATGCGCATATAGCCGGGTCA
*
13286751 ACAACGGCTTATG
1 GCAACGGCTTATG
13286764 TGCACTCCCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.25, C:0.25, G:0.29, T:0.22
Consensus pattern (30 bp):
GCAACGGCTTATGCGCATATAGCCGGGTCA
Found at i:13286803 original size:42 final size:42
Alignment explanation
Indices: 13286734--13287211 Score: 767
Period size: 42 Copynumber: 11.4 Consensus size: 42
13286724 ACGGCTTATG
* * *
13286734 CGCATATAGTCGGGTCAACAACGGCTTATGTGCACTCCCACT
1 CGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCCACT
* * **
13286776 CACACATAACCGGGTCAGCAACGGCTTATGTGCACTCGTACT
1 CGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCCACT
*
13286818 CGCACATAGCCAGGTCAGCAACGGCTTATGTGCACTCCCACT
1 CGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCCACT
13286860 CGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCCACT
1 CGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCCACT
13286902 CGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCCACT
1 CGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCCACT
*
13286944 CGCACATAGCCGAGTCAGCAACGGCTTATGTGCACTCCCACT
1 CGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCCACT
* *
13286986 CGCACATAGTCGGGTCAGCAACGGCTTATGTGCATTCCCACT
1 CGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCCACT
** *
13287028 CGCACATAGTTGGGTCAGCAATGGCTTATGTGCACTCCCACT
1 CGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCCACT
*
13287070 CGCACATAGCCGGGTCAGCAACCGCTTATGTGCACTCCCACT
1 CGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCCACT
*
13287112 CGCACATAGCTGGGTCAGCAACGGCTTATGTGCACTCCCACT
1 CGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCCACT
** * *
13287154 CGCACATAGTTGGGTCAGCAATGGCTTATGTGCACTCCTACT
1 CGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCCACT
*
13287196 CGCACATAGCCAGGTC
1 CGCACATAGCCGGGTC
13287212 CAAATCAACA
Statistics
Matches: 404, Mismatches: 32, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 404 1.00
ACGTcount: A:0.23, C:0.33, G:0.23, T:0.22
Consensus pattern (42 bp):
CGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCCACT
Found at i:13291617 original size:82 final size:82
Alignment explanation
Indices: 13291480--13291634 Score: 229
Period size: 82 Copynumber: 1.9 Consensus size: 82
13291470 TTCGTTTCTC
* * * *
13291480 CTTTGTTTTCTACATGGGTGGATAACATAAGGTCTTTTTATTTTTACAAGTTTACATGCATCTAT
1 CTTTGTTTTCTAAATGGGTGGACAACACAAGGTCTTTTTAGTTTTACAAGTTTACATGCATCTAT
13291545 CGATAGATGGCATGCAT
66 CGATAGATGGCATGCAT
* * * *
13291562 CTTTGTTTTCTAAATGGGTGGACAGCCCAAGGTTTTTTTAGTTTTGCAAGTTTACATGCATCTAT
1 CTTTGTTTTCTAAATGGGTGGACAACACAAGGTCTTTTTAGTTTTACAAGTTTACATGCATCTAT
*
13291627 TGATAGAT
66 CGATAGAT
13291635 CCTTTATGGA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
82 64 1.00
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (82 bp):
CTTTGTTTTCTAAATGGGTGGACAACACAAGGTCTTTTTAGTTTTACAAGTTTACATGCATCTAT
CGATAGATGGCATGCAT
Found at i:13295940 original size:31 final size:31
Alignment explanation
Indices: 13295905--13296001 Score: 124
Period size: 31 Copynumber: 3.2 Consensus size: 31
13295895 CAAATTACGA
13295905 TATAACCTTACACTACCTTTTATAATGGAGG
1 TATAACCTTACACTACCTTTTATAATGGAGG
* **
13295936 TATAACCTTAGACTACCTTTTATAAAAGAGG
1 TATAACCTTACACTACCTTTTATAATGGAGG
* * * *
13295967 TATAACCTTTCTCTACCATTTCT-ATGGAGG
1 TATAACCTTACACTACCTTTTATAATGGAGG
13295997 TATAA
1 TATAA
13296002 ACATACTATG
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
30 10 0.18
31 46 0.82
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (31 bp):
TATAACCTTACACTACCTTTTATAATGGAGG
Found at i:13296393 original size:15 final size:16
Alignment explanation
Indices: 13296359--13296395 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
13296349 CCAAAATTTA
13296359 GATTTTGATTCTTTTG
1 GATTTTGATTCTTTTG
13296375 GATTTTGACTT-TTTT-
1 GATTTTGA-TTCTTTTG
13296390 GATTTT
1 GATTTT
13296396 TTATTGAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 6 0.30
16 12 0.60
17 2 0.10
ACGTcount: A:0.14, C:0.05, G:0.16, T:0.65
Consensus pattern (16 bp):
GATTTTGATTCTTTTG
Found at i:13297782 original size:80 final size:80
Alignment explanation
Indices: 13297667--13298050 Score: 553
Period size: 80 Copynumber: 4.8 Consensus size: 80
13297657 TTTGTAATAG
* ** * *
13297667 GCATGCCATGAGATGTATGTTTTAAGATAGTCATATACACTATGGGCTAAGCATATGGGTGATTT
1 GCATGCCATGAGATGTATGTGTTGGGATAGTCATATACACTATGGGCTAAGCATGTGAGTGATTT
*
13297732 ATGAGGTTATGAAGT
66 ATGAGGTTATGAAAT
* *
13297747 GCATGCCATGAGATGTATGTGTTGGGATAGTCATATACACTATGGGCTAAGCATGTGAATGATTC
1 GCATGCCATGAGATGTATGTGTTGGGATAGTCATATACACTATGGGCTAAGCATGTGAGTGATTT
13297812 ATGAGGTTATGAAAT
66 ATGAGGTTATGAAAT
* * *
13297827 GCATGCCATGAGATGTATGTGTTGGTATAGTCATATACACTATAGGCTAAGCATGTTAGTGATTT
1 GCATGCCATGAGATGTATGTGTTGGGATAGTCATATACACTATGGGCTAAGCATGTGAGTGATTT
13297892 ATGAGGTTATGAAAT
66 ATGAGGTTATGAAAT
* * * *
13297907 GCATTCCATGAGATGTAGGTGTTGGGATAGTCATAAACATTATGGGCTAAGCATGTGAGTGATTT
1 GCATGCCATGAGATGTATGTGTTGGGATAGTCATATACACTATGGGCTAAGCATGTGAGTGATTT
13297972 ATGAGGTTATGAAAT
66 ATGAGGTTATGAAAT
* * * *
13297987 GCATGTCAT--GA-G-ATGTGTTGAGATAGTCATATATACTATAGGCTAAGCATGATGA-TGATT
1 GCATGCCATGAGATGTATGTGTTGGGATAGTCATATACACTATGGGCTAAGCATG-TGAGTGATT
13298047 TATG
65 TATG
13298051 GAAATGTTAT
Statistics
Matches: 275, Mismatches: 28, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
76 42 0.15
77 4 0.01
78 2 0.01
80 227 0.83
ACGTcount: A:0.30, C:0.10, G:0.27, T:0.33
Consensus pattern (80 bp):
GCATGCCATGAGATGTATGTGTTGGGATAGTCATATACACTATGGGCTAAGCATGTGAGTGATTT
ATGAGGTTATGAAAT
Found at i:13299146 original size:20 final size:20
Alignment explanation
Indices: 13299117--13299157 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
13299107 TATGTTTATA
13299117 TTTATAGATTAAGAACATGT
1 TTTATAGATTAAGAACATGT
* * *
13299137 TTTATGGATTATGAATATGT
1 TTTATAGATTAAGAACATGT
13299157 T
1 T
13299158 ACAATAATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.46
Consensus pattern (20 bp):
TTTATAGATTAAGAACATGT
Found at i:13299796 original size:22 final size:24
Alignment explanation
Indices: 13299770--13299820 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 24
13299760 TAACTCAAGC
13299770 CTTTT-ATTTCTTGAG-AATCAA-T
1 CTTTTCATTT-TTGAGTAATCAATT
*
13299792 CTTTTCATTTTTGAGTAGTCAATT
1 CTTTTCATTTTTGAGTAATCAATT
13299816 CTTTT
1 CTTTT
13299821 TGTCTCACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 10 0.40
23 9 0.36
24 6 0.24
ACGTcount: A:0.22, C:0.14, G:0.10, T:0.55
Consensus pattern (24 bp):
CTTTTCATTTTTGAGTAATCAATT
Found at i:13301217 original size:16 final size:16
Alignment explanation
Indices: 13301196--13301226 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13301186 TTATGTGCTT
13301196 GTAGGGATGGAGGTAA
1 GTAGGGATGGAGGTAA
*
13301212 GTAGGGATGGTGGTA
1 GTAGGGATGGAGGTA
13301227 TTCGTCTTGC
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:0.26, C:0.00, G:0.52, T:0.23
Consensus pattern (16 bp):
GTAGGGATGGAGGTAA
Found at i:13301273 original size:20 final size:22
Alignment explanation
Indices: 13301234--13301273 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
13301224 GTATTCGTCT
*
13301234 TGCTTGTGATTCCTGCTTGTAG
1 TGCTTGTGATGCCTGCTTGTAG
13301256 TGCTT-TGATGCC-GCTTGT
1 TGCTTGTGATGCCTGCTTGT
13301274 CTGAGAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 6 0.35
22 5 0.29
ACGTcount: A:0.07, C:0.20, G:0.28, T:0.45
Consensus pattern (22 bp):
TGCTTGTGATGCCTGCTTGTAG
Found at i:13303083 original size:15 final size:15
Alignment explanation
Indices: 13303063--13303095 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
13303053 ATCAACTAGC
13303063 AAAGAAAAAAAAAGA
1 AAAGAAAAAAAAAGA
*
13303078 AAAGAAAATAAAAGA
1 AAAGAAAAAAAAAGA
13303093 AAA
1 AAA
13303096 ATCCAAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (15 bp):
AAAGAAAAAAAAAGA
Found at i:13310841 original size:42 final size:42
Alignment explanation
Indices: 13310794--13310876 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
13310784 CATCTCATAT
*
13310794 GCAACGGCTTATGCGCACTCCCACTCGCACATAGCCGGGTCA
1 GCAACGGCTTATGCGCACTCCCACTCGCACATAGCCAGGTCA
*
13310836 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCAGGTC
1 GCAACGGCTTATGCGCACTCCCACTCGCACATAGCCAGGTC
13310877 CAAATCAGCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.22, C:0.37, G:0.23, T:0.18
Consensus pattern (42 bp):
GCAACGGCTTATGCGCACTCCCACTCGCACATAGCCAGGTCA
Found at i:13328417 original size:2 final size:2
Alignment explanation
Indices: 13328405--13328458 Score: 65
Period size: 2 Copynumber: 27.0 Consensus size: 2
13328395 TGCATTACTG
* * *
13328405 AT AT GT AT AT AT AT AT AT AT GAT AA AT -T AT AT AT AT AT AT AC
1 AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT
13328447 AT AT AT AT AT AT
1 AT AT AT AT AT AT
13328459 GTTTTGATTA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
1 1 0.02
2 41 0.93
3 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (2 bp):
AT
Found at i:13330436 original size:11 final size:10
Alignment explanation
Indices: 13330401--13330434 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
13330391 AACAAGTAAG
13330401 AAATAAATAA
1 AAATAAATAA
*
13330411 AAATATGATAA
1 AAATA-AATAA
13330422 AAATAAATAA
1 AAATAAATAA
13330432 AAA
1 AAA
13330435 ATGGGACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (10 bp):
AAATAAATAA
Found at i:13330933 original size:18 final size:18
Alignment explanation
Indices: 13330910--13330950 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
13330900 AGGTTTGGTT
13330910 CCACCCTGACCACCTTGG
1 CCACCCTGACCACCTTGG
* * *
13330928 CCACCCTGGCTACTTTGG
1 CCACCCTGACCACCTTGG
13330946 CCACC
1 CCACC
13330951 TTCTTGAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.15, C:0.49, G:0.17, T:0.20
Consensus pattern (18 bp):
CCACCCTGACCACCTTGG
Found at i:13336529 original size:43 final size:43
Alignment explanation
Indices: 13336467--13336587 Score: 172
Period size: 43 Copynumber: 2.8 Consensus size: 43
13336457 GACTCGGCTT
* **
13336467 TGTGCGAGTAGGGAATGCGCATAAGCCGAG-GATGACCCAATTA
1 TGTGCGAGTAGGGAGTGCGCATAAGCCG-GTGATGACCCAACCA
* *
13336510 TGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCCAGCCA
1 TGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAACCA
*
13336553 TGTGCGAGTAGGGAGTGCGCATAAGCTGGTGATGA
1 TGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGA
13336588 TGATGATGGG
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
42 1 0.01
43 69 0.99
ACGTcount: A:0.26, C:0.19, G:0.36, T:0.19
Consensus pattern (43 bp):
TGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAACCA
Found at i:13341664 original size:15 final size:16
Alignment explanation
Indices: 13341644--13341673 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13341634 CACTAAAAAA
13341644 TCCAAAA-AATCAAAT
1 TCCAAAAGAATCAAAT
13341659 TCCAAAAGAATCAAA
1 TCCAAAAGAATCAAA
13341674 ATCTAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.60, C:0.20, G:0.03, T:0.17
Consensus pattern (16 bp):
TCCAAAAGAATCAAAT
Found at i:13343143 original size:33 final size:33
Alignment explanation
Indices: 13343106--13343178 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
13343096 AACAAACTAG
* * *
13343106 CATGTCGCATTATTATCAATTATAATATGTTAA
1 CATGTCACATCATCATCAATTATAATATGTTAA
* * *
13343139 CATGTCATATCATCGTCAATTATTATATGTTAA
1 CATGTCACATCATCATCAATTATAATATGTTAA
*
13343172 TATGTCA
1 CATGTCA
13343179 TGTCAGTATC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (33 bp):
CATGTCACATCATCATCAATTATAATATGTTAA
Found at i:13353252 original size:32 final size:32
Alignment explanation
Indices: 13353214--13353286 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 32
13353204 AGCCTTGAGT
* *
13353214 CAATTTAAGGTCAAAATGAATCGAATTCACAA
1 CAATTTAAAGTCAAAATAAATCGAATTCACAA
* * * * *
13353246 TAATTTAAATTTAAAATAAATTGAATTCAGAA
1 CAATTTAAAGTCAAAATAAATCGAATTCACAA
13353278 CAATTTAAA
1 CAATTTAAA
13353287 CTTGAAATGA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.51, C:0.10, G:0.08, T:0.32
Consensus pattern (32 bp):
CAATTTAAAGTCAAAATAAATCGAATTCACAA
Found at i:13353756 original size:2 final size:2
Alignment explanation
Indices: 13353749--13353786 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
13353739 AAAGATTTAC
13353749 CT CT CT CT CT CT -T CT CT CT C- CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
13353787 ATATATATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:13353791 original size:2 final size:2
Alignment explanation
Indices: 13353786--13353830 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
13353776 TCTCTCTCTC
*
13353786 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13353828 TA T
1 TA T
13353831 GAAATTTCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13354809 original size:2 final size:2
Alignment explanation
Indices: 13354802--13354834 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
13354792 CCTTCTCGTA
13354802 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13354835 GATACTATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13360571 original size:19 final size:19
Alignment explanation
Indices: 13360547--13360584 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
13360537 ACTTCTAAAC
13360547 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
13360566 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
13360585 AGTCAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:13381742 original size:72 final size:73
Alignment explanation
Indices: 13381652--13381790 Score: 217
Period size: 73 Copynumber: 1.9 Consensus size: 73
13381642 AGGCAATTTG
* * *
13381652 CCTTGTAATTAAGCAGGCCAGGAACCATAAAT-ATAGTCCTACAATTTCAGTTGACTTGAAATTG
1 CCTTGTAACTAAGCAGGCCAGGAACCATAAATGATAGGCCTACAACTTCAGTTGACTTGAAATTG
13381716 CCAACTTA
66 CCAACTTA
* * *
13381724 CCTTGTAACTAAGTAGGCCGGGAACCATAAATGATAGGCCTACAACTTCAGTTGACTTGACATTG
1 CCTTGTAACTAAGCAGGCCAGGAACCATAAATGATAGGCCTACAACTTCAGTTGACTTGAAATTG
13381789 CC
66 CC
13381791 TAGAATTAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
72 29 0.48
73 31 0.52
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.27
Consensus pattern (73 bp):
CCTTGTAACTAAGCAGGCCAGGAACCATAAATGATAGGCCTACAACTTCAGTTGACTTGAAATTG
CCAACTTA
Found at i:13396414 original size:39 final size:39
Alignment explanation
Indices: 13396360--13396439 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
13396350 GTGATTAAAG
13396360 ATTATGTTATGTTTAAATTTATATGGTAGATTCAACTAT
1 ATTATGTTATGTTTAAATTTATATGGTAGATTCAACTAT
13396399 ATTATGTTATGTTTAAATTTATATGGTAGATTCAACTAT
1 ATTATGTTATGTTTAAATTTATATGGTAGATTCAACTAT
13396438 AT
1 AT
13396440 AAATTCTGGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.34, C:0.05, G:0.12, T:0.49
Consensus pattern (39 bp):
ATTATGTTATGTTTAAATTTATATGGTAGATTCAACTAT
Found at i:13396440 original size:19 final size:19
Alignment explanation
Indices: 13396379--13396440 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
13396369 TGTTTAAATT
13396379 TATATGGTAGATTCAACTA
1 TATATGGTAGATTCAACTA
* * * *
13396398 TATTATGTTATG-TTTAAATT
1 TA-TATGGTA-GATTCAACTA
13396418 TATATGGTAGATTCAACTA
1 TATATGGTAGATTCAACTA
13396437 TATA
1 TATA
13396441 AATTCTGGAA
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 1 0.03
19 17 0.53
20 13 0.41
21 1 0.03
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.45
Consensus pattern (19 bp):
TATATGGTAGATTCAACTA
Found at i:13402005 original size:23 final size:23
Alignment explanation
Indices: 13401979--13402074 Score: 68
Period size: 23 Copynumber: 4.1 Consensus size: 23
13401969 TTCAATAAAT
13401979 ACATCTGTTGAAACACAACAGAC
1 ACATCTGTTGAAACACAACAGAC
* ** *
13402002 ACATTTGTAAAAATA-ATACAGAC
1 ACATCTGTTGAAACACA-ACAGAC
* * ** *
13402025 ACTTCTATTGAAACTTAACAAGCC
1 ACATCTGTTGAAACACAAC-AGAC
* *
13402049 ACATCTGTTGAAAGACAATAGAC
1 ACATCTGTTGAAACACAACAGAC
13402072 ACA
1 ACA
13402075 ACCTTTCATT
Statistics
Matches: 51, Mismatches: 19, Indels: 6
0.67 0.25 0.08
Matches are distributed among these distances:
22 1 0.02
23 33 0.65
24 17 0.33
ACGTcount: A:0.45, C:0.21, G:0.11, T:0.23
Consensus pattern (23 bp):
ACATCTGTTGAAACACAACAGAC
Found at i:13403099 original size:3 final size:3
Alignment explanation
Indices: 13403091--13403116 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
13403081 AAGTCAAGTC
13403091 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
13403117 AGTTTTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:13410758 original size:93 final size:93
Alignment explanation
Indices: 13410599--13410784 Score: 372
Period size: 93 Copynumber: 2.0 Consensus size: 93
13410589 GACAGCGTTC
13410599 AGGACTCAGTACGGTCATTATGAGTTCTTGGTCATGCCTTTCGGGTTAACTAACGCACCGGCAGC
1 AGGACTCAGTACGGTCATTATGAGTTCTTGGTCATGCCTTTCGGGTTAACTAACGCACCGGCAGC
13410664 TTTTATGGATCTCATGAATAGGGTGTTT
66 TTTTATGGATCTCATGAATAGGGTGTTT
13410692 AGGACTCAGTACGGTCATTATGAGTTCTTGGTCATGCCTTTCGGGTTAACTAACGCACCGGCAGC
1 AGGACTCAGTACGGTCATTATGAGTTCTTGGTCATGCCTTTCGGGTTAACTAACGCACCGGCAGC
13410757 TTTTATGGATCTCATGAATAGGGTGTTT
66 TTTTATGGATCTCATGAATAGGGTGTTT
13410785 CACCCTTAAC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (93 bp):
AGGACTCAGTACGGTCATTATGAGTTCTTGGTCATGCCTTTCGGGTTAACTAACGCACCGGCAGC
TTTTATGGATCTCATGAATAGGGTGTTT
Found at i:13417739 original size:19 final size:19
Alignment explanation
Indices: 13417715--13417751 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
13417705 CCATTTGACT
13417715 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
13417734 TATTGGAGTATGATTTGA
1 TATTGGAGTATGATTTGA
13417752 AGTTTAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.43
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:13421049 original size:35 final size:37
Alignment explanation
Indices: 13420997--13421065 Score: 106
Period size: 35 Copynumber: 1.9 Consensus size: 37
13420987 CCACTAAAGG
13420997 AATGTGCTTTTTAACAAGATCAAGC-AAAACCCTCAC
1 AATGTGCTTTTTAACAAGATCAAGCGAAAACCCTCAC
* *
13421033 AATG-GCTTTTTCACAAGATCAAGCGATAACCCT
1 AATGTGCTTTTTAACAAGATCAAGCGAAAACCCT
13421066 TATACAAGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 19 0.63
36 11 0.37
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (37 bp):
AATGTGCTTTTTAACAAGATCAAGCGAAAACCCTCAC
Found at i:13422657 original size:10 final size:10
Alignment explanation
Indices: 13422629--13422657 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
13422619 TAAATCCATT
13422629 TTTCATAAAA
1 TTTCATAAAA
13422639 TTT-ATAAAA
1 TTTCATAAAA
13422648 TTTCATAAAA
1 TTTCATAAAA
13422658 ACTACCTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (10 bp):
TTTCATAAAA
Found at i:13426009 original size:15 final size:15
Alignment explanation
Indices: 13425959--13426009 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
13425949 TTCTTAAAAC
*
13425959 AACTTTAAAACTAAA
1 AACTTTAAAACCAAA
13425974 AACTTTAAAATCC-AA
1 AACTTTAAAA-CCAAA
*
13425989 AGCTTTAAAACCAAA
1 AACTTTAAAACCAAA
*
13426004 ATCTTT
1 AACTTT
13426010 GATCTTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
14 2 0.06
15 28 0.90
16 1 0.03
ACGTcount: A:0.51, C:0.18, G:0.02, T:0.29
Consensus pattern (15 bp):
AACTTTAAAACCAAA
Found at i:13433197 original size:21 final size:20
Alignment explanation
Indices: 13433154--13433200 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
13433144 AATAAATTTC
* *
13433154 TATCGATACTTATTCAAATG
1 TATCGATACTGATGCAAATG
*
13433174 TATCGATACATGATGCACATG
1 TATCGATAC-TGATGCAAATG
13433195 TATCGA
1 TATCGA
13433201 AAGATTTAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (20 bp):
TATCGATACTGATGCAAATG
Found at i:13434828 original size:21 final size:20
Alignment explanation
Indices: 13434778--13434820 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
13434768 TCAAAATCAA
*
13434778 AAAACT-AAATTGATTAACT
1 AAAACTAAAATTGATTAACC
13434797 AAAACTAAAATTGATTAACC
1 AAAACTAAAATTGATTAACC
13434817 AAAA
1 AAAA
13434821 TTTAAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.58, C:0.12, G:0.05, T:0.26
Consensus pattern (20 bp):
AAAACTAAAATTGATTAACC
Found at i:13435901 original size:21 final size:21
Alignment explanation
Indices: 13435875--13435921 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
13435865 CATAAAAACT
*
13435875 AATAAAT-AATAGCCAAATTAA
1 AATAAATAAATA-CAAAATTAA
*
13435896 AATAAATAAATATAAAATTAA
1 AATAAATAAATACAAAATTAA
13435917 AATAA
1 AATAA
13435922 CTCACAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (21 bp):
AATAAATAAATACAAAATTAA
Found at i:13435954 original size:16 final size:18
Alignment explanation
Indices: 13435928--13435963 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
13435918 ATAACTCACA
13435928 AAAAATAAACT-AATTAT
1 AAAAATAAACTAAATTAT
13435945 AAAAAT-AACTAAATTAT
1 AAAAATAAACTAAATTAT
13435962 AA
1 AA
13435964 TTAAAAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAAATAAACTAAATTAT
Found at i:13437261 original size:22 final size:23
Alignment explanation
Indices: 13437219--13437261 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
13437209 ATAAAACATG
*
13437219 CAAAACATAACTTAAATTAAAAA
1 CAAAACATAACTTAAAGTAAAAA
13437242 CAAAA-ATAA-TTAAAAGTAAA
1 CAAAACATAACTT-AAAGTAAA
13437262 TAAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 2 0.11
22 11 0.61
23 5 0.28
ACGTcount: A:0.67, C:0.09, G:0.02, T:0.21
Consensus pattern (23 bp):
CAAAACATAACTTAAAGTAAAAA
Found at i:13445483 original size:5 final size:5
Alignment explanation
Indices: 13445464--13445519 Score: 64
Period size: 5 Copynumber: 11.4 Consensus size: 5
13445454 ATGCCCACTC
*
13445464 TTTCTT TTTCTT TTTCT TTTCT TTTC- TTTCT TTTCT TTTCT CTTC- TTTC-
1 TTTC-T TTTC-T TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT
13445513 TTTCT TT
1 TTTCT TT
13445520 CAACGTTCAG
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
4 11 0.24
5 25 0.54
6 10 0.22
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTCT
Found at i:13445499 original size:19 final size:19
Alignment explanation
Indices: 13445466--13445519 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
13445456 GCCCACTCTT
13445466 TCTT-TTTCTTTTTCTTTTC
1 TCTTCTTTC-TTTTCTTTTC
*
13445485 TTTTCTTTCTTTTCTTTTC
1 TCTTCTTTCTTTTCTTTTC
13445504 TCTTCTTTC-TTTCTTT
1 TCTTCTTTCTTTTCTTT
13445520 CAACGTTCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
18 7 0.22
19 21 0.66
20 4 0.12
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (19 bp):
TCTTCTTTCTTTTCTTTTC
Found at i:13445716 original size:34 final size:34
Alignment explanation
Indices: 13445674--13445761 Score: 106
Period size: 34 Copynumber: 2.6 Consensus size: 34
13445664 CCCATATCAG
* * * *
13445674 CCTC-AAAATCAGCAGCCAAGCTGCTCTATTTTT
1 CCTCAAAAATCAGCAGCCAAGCAGCTCTACTCTC
* *
13445707 CCTCAAAAATCAGCAACTAAGCAGCTCTACTCTC
1 CCTCAAAAATCAGCAGCCAAGCAGCTCTACTCTC
13445741 CCTCCAAAAATCAGCAGCCAA
1 CCT-CAAAAATCAGCAGCCAA
13445762 AGCTACAAAG
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
33 4 0.09
34 26 0.58
35 15 0.33
ACGTcount: A:0.34, C:0.34, G:0.10, T:0.22
Consensus pattern (34 bp):
CCTCAAAAATCAGCAGCCAAGCAGCTCTACTCTC
Found at i:13445820 original size:34 final size:34
Alignment explanation
Indices: 13445781--13445884 Score: 136
Period size: 34 Copynumber: 3.0 Consensus size: 34
13445771 GATTAGCAAC
* *
13445781 CAAAATCGCACCTTTCAGCCTTCAAAATCAGCAG
1 CAAAATCGCACTTTTTAGCCTTCAAAATCAGCAG
* * * *
13445815 CAAAATTGTACTTTTTAGCCTTCAAAATTAGCAA
1 CAAAATCGCACTTTTTAGCCTTCAAAATCAGCAG
*
13445849 CAAAAACTGCACTTTTTAGCCTTCAAAATCAGCAG
1 CAAAATC-GCACTTTTTAGCCTTCAAAATCAGCAG
13445884 C
1 C
13445885 TAAAGTTGCT
Statistics
Matches: 58, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
34 33 0.57
35 25 0.43
ACGTcount: A:0.37, C:0.26, G:0.11, T:0.27
Consensus pattern (34 bp):
CAAAATCGCACTTTTTAGCCTTCAAAATCAGCAG
Found at i:13445870 original size:35 final size:33
Alignment explanation
Indices: 13445775--13445882 Score: 126
Period size: 35 Copynumber: 3.1 Consensus size: 33
13445765 TACAAAGATT
* *
13445775 AGCAACCAAAATCGCACCTTTCAGCCTTCAAAATC
1 AGCAA-CAAAAT-GCACTTTTTAGCCTTCAAAATC
* * *
13445810 AGCAGCAAAATTGTACTTTTTAGCCTTCAAAATT
1 AGCAACAAAA-TGCACTTTTTAGCCTTCAAAATC
13445844 AGCAACAAAAACTGCACTTTTTAGCCTTCAAAATC
1 AGCAAC-AAAA-TGCACTTTTTAGCCTTCAAAATC
13445879 AGCA
1 AGCA
13445883 GCTAAAGTTG
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
34 28 0.45
35 34 0.55
ACGTcount: A:0.38, C:0.26, G:0.10, T:0.26
Consensus pattern (33 bp):
AGCAACAAAATGCACTTTTTAGCCTTCAAAATC
Found at i:13449833 original size:55 final size:55
Alignment explanation
Indices: 13449750--13449910 Score: 250
Period size: 55 Copynumber: 2.9 Consensus size: 55
13449740 TGATGACAGG
* * *
13449750 TGATTCCAGCTATGTGCGGTGTGAGAGTGCACATGAGCTGATGACTGGTGGGTGA
1 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCGGTGGATGA
**
13449805 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCGAAGGATGA
1 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCGGTGGATGA
* * *
13449860 TGATTCCAGTTATGTGCAGTGTGGGAGTGCACATGAGTTGATGACCGGTGG
1 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCGGTGG
13449911 TTGTATACAT
Statistics
Matches: 96, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 96 1.00
ACGTcount: A:0.21, C:0.15, G:0.37, T:0.27
Consensus pattern (55 bp):
TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCGGTGGATGA
Done.