Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 115 of 240
Found at i:35781791 original size:54 final size:53
Alignment explanation
Indices: 35781633--35781803 Score: 166
Period size: 54 Copynumber: 3.2 Consensus size: 53
35781623 ATACCCTCGA
* * * * * *
35781633 AGGGTAAAATGATCGAAATACCCCCAAAGGGTAAAATTG-TCGAAATATCCCCGA-
1 AGGGTAAAATGACCGAAAT-CCCCTATAGGGT-AAATTGACCGTAATA-CCCCTAT
* * * * * *
35781687 AGGGTAAAATGACTGAAATACCCTGTAGGATAAAATGACCGTAATGCCCCTAT
1 AGGGTAAAATGACCGAAATCCCCTATAGGGTAAATTGACCGTAATACCCCTAT
* *
35781740 AGGGTAAAATGACCGTAATGCCCCTATAGGGTAAATTGACCGTAATACCCCTGT
1 AGGGTAAAATGACCGAAAT-CCCCTATAGGGTAAATTGACCGTAATACCCCTAT
35781794 AGGGTAAAAT
1 AGGGTAAAAT
35781804 AACTATTTTG
Statistics
Matches: 94, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
52 10 0.11
53 29 0.31
54 55 0.59
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (53 bp):
AGGGTAAAATGACCGAAATCCCCTATAGGGTAAATTGACCGTAATACCCCTAT
Found at i:35781860 original size:24 final size:24
Alignment explanation
Indices: 35781828--35781933 Score: 97
Period size: 24 Copynumber: 4.4 Consensus size: 24
35781818 TTGGGGTTAC
*
35781828 ATGATTGATTTGCCTGTGATGTAA
1 ATGACTGATTTGCCTGTGATGTAA
* **
35781852 ATGAATGATTTGTCC-AAGATGTAA
1 ATGACTGATTTG-CCTGTGATGTAA
* *
35781876 ATGACTGATTTGTCTGTGATTTAA
1 ATGACTGATTTGCCTGTGATGTAA
** * **
35781900 ATGACTGATTTATCTGTGATTTGT
1 ATGACTGATTTGCCTGTGATGTAA
35781924 ATGACTGATT
1 ATGACTGATT
35781934 CCGTGCATGG
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
23 1 0.01
24 66 0.96
25 2 0.03
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.42
Consensus pattern (24 bp):
ATGACTGATTTGCCTGTGATGTAA
Found at i:35782159 original size:32 final size:32
Alignment explanation
Indices: 35782108--35782294 Score: 241
Period size: 32 Copynumber: 5.8 Consensus size: 32
35782098 GTGATGCTAT
* *
35782108 TGATGGCTTTGTGCCGATCATATTACCATTAC
1 TGATGGCTGTGTGCCGATCATATTACTATTAC
**
35782140 TGATGGCTGTGTGTTGATCATATTA-TCATTAC
1 TGATGGCTGTGTGCCGATCATATTACT-ATTAC
* * *
35782172 TAATGGCTGTGTGTCGATCATATTACTACTAC
1 TGATGGCTGTGTGCCGATCATATTACTATTAC
* *
35782204 TGATGGCTTTGTGCCGATCATACTACTATTAC
1 TGATGGCTGTGTGCCGATCATATTACTATTAC
* *
35782236 TGATGGCTGTGTGCCAATCATATTACTACTAC
1 TGATGGCTGTGTGCCGATCATATTACTATTAC
* *
35782268 TGATGGCTTTGTGCCAATCATATTACT
1 TGATGGCTGTGTGCCGATCATATTACT
35782295 GTACTTATGG
Statistics
Matches: 136, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
32 135 0.99
33 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (32 bp):
TGATGGCTGTGTGCCGATCATATTACTATTAC
Found at i:35782274 original size:96 final size:96
Alignment explanation
Indices: 35782108--35782294 Score: 268
Period size: 96 Copynumber: 1.9 Consensus size: 96
35782098 GTGATGCTAT
* *** *
35782108 TGATGGCTTTGTGCCGATCATATTACCATTACTGATGGCTGTGTGTTGATCATATTATCATTACT
1 TGATGGCTTTGTGCCGATCATACTACCATTACTGATGGCTGTGTGCCAATCATATTATCACTACT
* *
35782173 AATGGCTGTGTGTCGATCATATTACTACTAC
66 AATGGCTGTGTGCCAATCATATTACTACTAC
*
35782204 TGATGGCTTTGTGCCGATCATACTACTATTACTGATGGCTGTGTGCCAATCATATTA-CTACTAC
1 TGATGGCTTTGTGCCGATCATACTACCATTACTGATGGCTGTGTGCCAATCATATTATC-ACTAC
* *
35782268 TGATGGCTTTGTGCCAATCATATTACT
65 TAATGGCTGTGTGCCAATCATATTACT
35782295 GTACTTATGG
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
95 1 0.01
96 79 0.99
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (96 bp):
TGATGGCTTTGTGCCGATCATACTACCATTACTGATGGCTGTGTGCCAATCATATTATCACTACT
AATGGCTGTGTGCCAATCATATTACTACTAC
Found at i:35786504 original size:38 final size:38
Alignment explanation
Indices: 35786462--35786535 Score: 148
Period size: 38 Copynumber: 1.9 Consensus size: 38
35786452 ATGTAGAATC
35786462 AATGGAACCTAAAGGCTTGATCCATTTCTATTTACATT
1 AATGGAACCTAAAGGCTTGATCCATTTCTATTTACATT
35786500 AATGGAACCTAAAGGCTTGATCCATTTCTATTTACA
1 AATGGAACCTAAAGGCTTGATCCATTTCTATTTACA
35786536 AAATTTTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (38 bp):
AATGGAACCTAAAGGCTTGATCCATTTCTATTTACATT
Found at i:35805083 original size:73 final size:72
Alignment explanation
Indices: 35804956--35805098 Score: 205
Period size: 73 Copynumber: 2.0 Consensus size: 72
35804946 TTAGGTAAGA
* * * * *
35804956 ATCTCCTCCGGTCTCATCCTAGAATAAAAGGTACCACATAAGCTTTCCCCTTGGTCTCAATTAGG
1 ATCTCCCCCGGTCTCATCCTAGAAGAAAAGATACCACATAAGCTCTCCCCTTGGTCTCAACTAGG
35805021 CATATCG
66 CATATCG
* * *
35805028 ATCTCCCCTCGGTCTCATCCTAGACGAAAAGATACCACATAAGCTCTCCTCTTGGTCTTAACTAG
1 ATCTCCCC-CGGTCTCATCCTAGAAGAAAAGATACCACATAAGCTCTCCCCTTGGTCTCAACTAG
35805093 GCATAT
65 GCATAT
35805099 AGATTTCCTC
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
72 7 0.11
73 55 0.89
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.29
Consensus pattern (72 bp):
ATCTCCCCCGGTCTCATCCTAGAAGAAAAGATACCACATAAGCTCTCCCCTTGGTCTCAACTAGG
CATATCG
Found at i:35805117 original size:73 final size:73
Alignment explanation
Indices: 35804967--35805117 Score: 194
Period size: 73 Copynumber: 2.1 Consensus size: 73
35804957 TCTCCTCCGG
* * * * *
35804967 TCTCATCCTAGAATAAAAGGTACCACATAAGCTTTCCCCTTGGTCTCAATTAGGCATATCGATCT
1 TCTCATCCTAGAAGAAAAGATACCACATAAGCTCTCCCCTTGGTCTCAACTAGGCATATAGATCT
*
35805032 CCCCTCGG
66 CCCCTCGA
* * * *
35805040 TCTCATCCTAGACGAAAAGATACCACATAAGCTCTCCTCTTGGTCTTAACTAGGCATATAGATTT
1 TCTCATCCTAGAAGAAAAGATACCACATAAGCTCTCCCCTTGGTCTCAACTAGGCATATAGATCT
* *
35805105 CCTCTTGA
66 CCCCTCGA
35805113 TCTCA
1 TCTCA
35805118 CTATTCGACA
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
73 66 1.00
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.30
Consensus pattern (73 bp):
TCTCATCCTAGAAGAAAAGATACCACATAAGCTCTCCCCTTGGTCTCAACTAGGCATATAGATCT
CCCCTCGA
Found at i:35812242 original size:6 final size:6
Alignment explanation
Indices: 35812231--35812260 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
35812221 AATTATTTTG
35812231 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
35812261 ATAATCTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:35820022 original size:54 final size:53
Alignment explanation
Indices: 35819935--35820037 Score: 170
Period size: 54 Copynumber: 1.9 Consensus size: 53
35819925 CCAAGTCTGT
*
35819935 GAGTTACACGGCCTAGCACACGGCCTGGAACACGAGCGTGTGTGGGAACTTAGA
1 GAGTTACACAGCCTAGCACACGGCCTGGAACACGAGCGTGTG-GGGAACTTAGA
* *
35819989 GAGTTACACAGCCTAGCACACGGCCTGGCACACGGGCGTGTGGGGAACT
1 GAGTTACACAGCCTAGCACACGGCCTGGAACACGAGCGTGTGGGGAACT
35820038 CAGTGAGGAC
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
53 7 0.15
54 39 0.85
ACGTcount: A:0.24, C:0.26, G:0.34, T:0.16
Consensus pattern (53 bp):
GAGTTACACAGCCTAGCACACGGCCTGGAACACGAGCGTGTGGGGAACTTAGA
Found at i:35821476 original size:14 final size:14
Alignment explanation
Indices: 35821444--35821483 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
35821434 ATTTCTCGTG
*
35821444 TTTCATTTATTTAC
1 TTTCTTTTATTTAC
*
35821458 TTTCTTTTATTTCC
1 TTTCTTTTATTTAC
35821472 TTTCTTATTATT
1 TTTCTT-TTATT
35821484 ATTTGTATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 18 0.78
15 5 0.22
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTCTTTTATTTAC
Found at i:35822707 original size:27 final size:27
Alignment explanation
Indices: 35822643--35822708 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
35822633 GCTGGTGTTT
* *
35822643 GCCACTAGGCCTGGCGAGTTAGTATTC
1 GCCAGTAGGCCTGGCGAGTTAATATTC
* * *
35822670 ACTAGTGGGCCTGGCGAGTTAATATTC
1 GCCAGTAGGCCTGGCGAGTTAATATTC
35822697 GCCAGTAGGCCT
1 GCCAGTAGGCCT
35822709 AGTGAGCAGG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.20, C:0.24, G:0.30, T:0.26
Consensus pattern (27 bp):
GCCAGTAGGCCTGGCGAGTTAATATTC
Found at i:35829239 original size:18 final size:18
Alignment explanation
Indices: 35829197--35829239 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
35829187 GTTTGAATTT
*
35829197 AATATTTCAATTATATAA
1 AATATTTCAATTAAATAA
35829215 AATTATTT-AATTAAAATAA
1 AA-TATTTCAATT-AAATAA
35829234 AATATT
1 AATATT
35829240 ATCTTTTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
AATATTTCAATTAAATAA
Found at i:35834369 original size:28 final size:26
Alignment explanation
Indices: 35834325--35834376 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
35834315 TTAATTCCAA
*
35834325 CTTTTATAACATGTATATATATACATAT
1 CTTTTATAACA--TATATAAATACATAT
*
35834353 CTTTTATAATATATATAAATACAT
1 CTTTTATAACATATATAAATACAT
35834377 GCACATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 12 0.55
28 10 0.45
ACGTcount: A:0.42, C:0.10, G:0.02, T:0.46
Consensus pattern (26 bp):
CTTTTATAACATATATAAATACATAT
Found at i:35834457 original size:21 final size:20
Alignment explanation
Indices: 35834419--35834457 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
35834409 ATACATCCTT
* *
35834419 TATGTTTTTACATGTATAAA
1 TATGTTTTTAAATATATAAA
35834439 TATGTTTTTATAATATATA
1 TATGTTTTTA-AATATATA
35834458 TGCATATACA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.54
Consensus pattern (20 bp):
TATGTTTTTAAATATATAAA
Found at i:35836216 original size:11 final size:11
Alignment explanation
Indices: 35836200--35836224 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
35836190 AGCCCACCCC
35836200 TGTTCGGCTCA
1 TGTTCGGCTCA
35836211 TGTTCGGCTCA
1 TGTTCGGCTCA
35836222 TGT
1 TGT
35836225 CAAAGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.24, G:0.28, T:0.40
Consensus pattern (11 bp):
TGTTCGGCTCA
Found at i:35837629 original size:26 final size:25
Alignment explanation
Indices: 35837559--35837670 Score: 89
Period size: 26 Copynumber: 4.7 Consensus size: 25
35837549 TTAATAGGAT
35837559 TATTATTAAATATAATTTAATAATAA
1 TATTATTAAATATAATTTAAT-ATAA
* **
35837585 -ATTAATAAATTATTTTTTAATATAA
1 TATTATTAAA-TATAATTTAATATAA
35837610 CTATTATTAAATATAATTTAATA-AA
1 -TATTATTAAATATAATTTAATATAA
35837635 -A--A-TAATATATAATTT-A-ATAA
1 TATTATTAA-ATATAATTTAATATAA
*
35837655 TATTCTT-AATATAATT
1 TATTATTAAATATAATT
35837671 ATTTTTATAT
Statistics
Matches: 70, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
19 1 0.01
20 6 0.09
21 11 0.16
22 8 0.11
23 2 0.03
24 1 0.01
25 14 0.20
26 19 0.27
27 8 0.11
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
TATTATTAAATATAATTTAATATAA
Found at i:35837687 original size:22 final size:22
Alignment explanation
Indices: 35837662--35837708 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
35837652 TAATATTCTT
35837662 AATA-TAATTATTTTTATATTAA
1 AATATTAATTATTTTTATA-TAA
**
35837684 AATATTTTTTATTTTTATATAA
1 AATATTAATTATTTTTATATAA
35837706 AAT
1 AAT
35837709 TATATTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
AATATTAATTATTTTTATATAA
Found at i:35843906 original size:14 final size:14
Alignment explanation
Indices: 35843887--35843926 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
35843877 TTGATTGCCA
35843887 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
35843901 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
35843915 GGAAAATGTTTT
1 GTAAAATGTTTT
35843927 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:35843935 original size:20 final size:20
Alignment explanation
Indices: 35843910--35843947 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
35843900 CGTAAAATGA
*
35843910 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
35843930 TTTCTGTAAAATGATTTA
1 TTTCTGGAAAATGATTTA
35843948 GTAGAAAATA
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:0.29, C:0.08, G:0.13, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:35848572 original size:12 final size:11
Alignment explanation
Indices: 35848541--35848571 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
35848531 TAGAGGCTAG
35848541 AAAG-AAAAAT
1 AAAGCAAAAAT
35848551 AAAGCAAAAAT
1 AAAGCAAAAAT
35848562 AAAGCAAAAA
1 AAAGCAAAAA
35848572 AGAGTAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.20
11 16 0.80
ACGTcount: A:0.77, C:0.06, G:0.10, T:0.06
Consensus pattern (11 bp):
AAAGCAAAAAT
Found at i:35850002 original size:52 final size:52
Alignment explanation
Indices: 35849902--35850006 Score: 156
Period size: 52 Copynumber: 2.0 Consensus size: 52
35849892 CATAGAGATG
* ***
35849902 TTTTCTCATTCCAATACATGAGCATGGACAGTTTCAATTCATGAAGACATTT
1 TTTTCTCATTCAAATACATGAGCATGGACAGTTTCAAAGAATGAAGACATTT
* *
35849954 TTTTCTCATTCAAATACATGAGCATGGACGGTTTCAAAGAATGGAGACATTT
1 TTTTCTCATTCAAATACATGAGCATGGACAGTTTCAAAGAATGAAGACATTT
35850006 T
1 T
35850007 CTCATCCAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.35
Consensus pattern (52 bp):
TTTTCTCATTCAAATACATGAGCATGGACAGTTTCAAAGAATGAAGACATTT
Found at i:35852712 original size:20 final size:20
Alignment explanation
Indices: 35852689--35852730 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
35852679 GATTATATGA
35852689 AATGATCTATGAACTAAAGT
1 AATGATCTATGAACTAAAGT
*
35852709 AATGATCTATGAATTAAAGT
1 AATGATCTATGAACTAAAGT
35852729 AA
1 AA
35852731 GTATATAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.31
Consensus pattern (20 bp):
AATGATCTATGAACTAAAGT
Found at i:35858895 original size:42 final size:42
Alignment explanation
Indices: 35858813--35858981 Score: 153
Period size: 42 Copynumber: 4.0 Consensus size: 42
35858803 TCTCATGAAA
* * * * *
35858813 TTCAGTCAA-CTCATATGAGTTTCAGATTAACCCTTTTGGGT
1 TTCAGTTAAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGT
* * * *
35858854 TTCAGTTCAGCTCTTTTGAGCTTCAGTTTAGCCCTAATGGGT
1 TTCAGTTAAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGT
* * * *
35858896 TTCCA-TTTAGCTCTTCTGTGCTTCAGATTAACCCTTATGGGT
1 TT-CAGTTAAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGT
* * * * *
35858938 TTCTGTTAAGGTCCTATGAGCTTCCGTTTAACCCTTACGGGT
1 TTCAGTTAAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGT
35858980 TT
1 TT
35858982 TCGTTTAGCA
Statistics
Matches: 101, Mismatches: 24, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
41 8 0.08
42 91 0.90
43 2 0.02
ACGTcount: A:0.18, C:0.22, G:0.19, T:0.41
Consensus pattern (42 bp):
TTCAGTTAAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGT
Found at i:35858980 original size:84 final size:84
Alignment explanation
Indices: 35858833--35859002 Score: 214
Period size: 84 Copynumber: 2.0 Consensus size: 84
35858823 TCATATGAGT
* * * * * *
35858833 TTCAGATTAACCCTTTTGGGTTTCAGTTCAGCTCTTTTGAGCTTCAGTTTAGCCCTAATGGGTTT
1 TTCAGATTAACCCTTATGGGTTTCAGTTAAGCTCCTATGAGCTTCAGTTTAACCCTAACGGGTTT
* *
35858898 CCATTTAGCTCTTCTGTGC
66 CCATTTAGCACTTATGTGC
* * * *
35858917 TTCAGATTAACCCTTATGGGTTTCTGTTAAGGTCCTATGAGCTTCCGTTTAACCCTTACGGGTTT
1 TTCAGATTAACCCTTATGGGTTTCAGTTAAGCTCCTATGAGCTTCAGTTTAACCCTAACGGGTTT
* *
35858982 TCGTTTAGCACTTATGTGC
66 CCATTTAGCACTTATGTGC
35859001 TT
1 TT
35859003 TTATGCAACC
Statistics
Matches: 72, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
84 72 1.00
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.42
Consensus pattern (84 bp):
TTCAGATTAACCCTTATGGGTTTCAGTTAAGCTCCTATGAGCTTCAGTTTAACCCTAACGGGTTT
CCATTTAGCACTTATGTGC
Found at i:35870004 original size:19 final size:20
Alignment explanation
Indices: 35869975--35870018 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
35869965 TTACCGTATA
* *
35869975 AAAAACTAAAATCAATTTTT
1 AAAAACTAAAAGCAAATTTT
*
35869995 AAAAAC-AAAAGGAAATTTT
1 AAAAACTAAAAGCAAATTTT
35870014 AAAAA
1 AAAAA
35870019 AATGAGTGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.25
Consensus pattern (20 bp):
AAAAACTAAAAGCAAATTTT
Found at i:35870362 original size:56 final size:57
Alignment explanation
Indices: 35870301--35870410 Score: 204
Period size: 56 Copynumber: 1.9 Consensus size: 57
35870291 CGTGATTTAA
35870301 TAGATTTTATTAATTGGTCAATTAGTCAAGGT-AAAGTGTTGCATATCGAAAGTTAG
1 TAGATTTTATTAATTGGTCAATTAGTCAAGGTAAAAGTGTTGCATATCGAAAGTTAG
*
35870357 TAGATTTTATTAATTGGTCAATTAGTCAAGGTAAAAGTGTTGCGTATCGAAAGT
1 TAGATTTTATTAATTGGTCAATTAGTCAAGGTAAAAGTGTTGCATATCGAAAGT
35870411 CAAGTGATTT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
56 32 0.62
57 20 0.38
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.37
Consensus pattern (57 bp):
TAGATTTTATTAATTGGTCAATTAGTCAAGGTAAAAGTGTTGCATATCGAAAGTTAG
Found at i:35870704 original size:11 final size:12
Alignment explanation
Indices: 35870688--35870727 Score: 57
Period size: 11 Copynumber: 3.5 Consensus size: 12
35870678 AATGTGAAAT
35870688 ATTTTAT-TTTA
1 ATTTTATATTTA
*
35870699 ATTTTATAATTA
1 ATTTTATATTTA
35870711 ATTTT-TATTTA
1 ATTTTATATTTA
35870722 ATTTTA
1 ATTTTA
35870728 ATGTTAAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 17 0.68
12 8 0.32
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATTTTATATTTA
Found at i:35875034 original size:16 final size:16
Alignment explanation
Indices: 35875013--35875043 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35875003 ATTGGGTTGA
*
35875013 GAAAATTATTTAATTG
1 GAAAATTAATTAATTG
35875029 GAAAATTAATTAATT
1 GAAAATTAATTAATT
35875044 AATTTAATTT
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:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (16 bp):
GAAAATTAATTAATTG
Found at i:35877212 original size:50 final size:50
Alignment explanation
Indices: 35877141--35877326 Score: 185
Period size: 50 Copynumber: 3.6 Consensus size: 50
35877131 CTATACTGCA
* * ** *
35877141 AATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGATGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCAATGCC
* * * *
35877191 CATGCCATGTCCCAGACATGGTCTTACA-AAGGACCTCTCATCTCAATACC
1 AATGCCATGTCCCAGACATGGTCTTACATGA-GACCTCTCATATCAATGCC
* * * *
35877241 AACGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATAACCTAAATAATGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCAT-A--T---CAATGCC
35877297 AATGCCATGTCCCAGACATGGTCTTACATG
1 AATGCCATGTCCCAGACATGGTCTTACATG
35877327 GGGTCTCATC
Statistics
Matches: 109, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
49 1 0.01
50 74 0.68
53 1 0.01
56 33 0.30
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (50 bp):
AATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCAATGCC
Found at i:35878908 original size:20 final size:19
Alignment explanation
Indices: 35878862--35878916 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
35878852 AAAAAATTTT
*
35878862 AAAATTATTAGAAATTATT
1 AAAATTATTAGAAATTATG
35878881 AAAA-TATTAGAAAAATTA-G
1 AAAATTATTAG--AAATTATG
35878900 AAAATTATTA-AAATTAT
1 AAAATTATTAGAAATTAT
35878917 ATACGTTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
17 6 0.19
18 6 0.19
19 8 0.26
20 11 0.35
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.36
Consensus pattern (19 bp):
AAAATTATTAGAAATTATG
Found at i:35878912 original size:9 final size:9
Alignment explanation
Indices: 35878854--35878938 Score: 70
Period size: 9 Copynumber: 9.3 Consensus size: 9
35878844 TTTTTGTTAA
35878854 AAAATT-TT
1 AAAATTATT
35878862 AAAATTATT
1 AAAATTATT
35878871 AGAAATTATT
1 A-AAATTATT
35878881 AAAA-TATT
1 AAAATTATT
*
35878889 AGAAAAATTA-G
1 ---AAAATTATT
35878900 AAAATTATT
1 AAAATTATT
35878909 AAAATTA-T
1 AAAATTATT
**
35878917 ATACGTTATT
1 A-AAATTATT
35878927 AAAATTATT
1 AAAATTATT
35878936 AAA
1 AAA
35878939 TGTTAAATAA
Statistics
Matches: 62, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
8 19 0.31
9 26 0.42
10 11 0.18
11 4 0.06
12 2 0.03
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.39
Consensus pattern (9 bp):
AAAATTATT
Found at i:35878912 original size:18 final size:19
Alignment explanation
Indices: 35878853--35878916 Score: 55
Period size: 20 Copynumber: 3.5 Consensus size: 19
35878843 ATTTTTGTTA
*
35878853 AAAAATT-TTAAAATTATT
1 AAAAATTATGAAAATTATT
* *
35878871 AGAAATTATTAAAA-TATT
1 AAAAATTATGAAAATTATT
35878889 AGAAAAATTA-GAAAATTATT
1 --AAAAATTATGAAAATTATT
35878909 -AAAATTAT
1 AAAAATTAT
35878917 ATACGTTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
17 7 0.18
18 10 0.26
19 10 0.26
20 11 0.29
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.38
Consensus pattern (19 bp):
AAAAATTATGAAAATTATT
Found at i:35879067 original size:30 final size:32
Alignment explanation
Indices: 35879012--35879089 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 32
35879002 ATAGTCCTTG
35879012 AAAATTAATTAAGTCCACCTAAAATA-ATTTAA
1 AAAATTAATTAAG-CCACCTAAAATATATTTAA
* *
35879044 AAAATTAATTAAGCC-CGTAAAATATTTTTAA
1 AAAATTAATTAAGCCACCTAAAATATATTTAA
* *
35879075 AAGATCAATTAAGCC
1 AAAATTAATTAAGCC
35879090 TTCCAAGTCA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
30 8 0.20
31 20 0.49
32 13 0.32
ACGTcount: A:0.50, C:0.13, G:0.06, T:0.31
Consensus pattern (32 bp):
AAAATTAATTAAGCCACCTAAAATATATTTAA
Found at i:35880203 original size:30 final size:30
Alignment explanation
Indices: 35880167--35880227 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
35880157 GTCTTTCTTT
35880167 TCATTAGAAGATTT-CCTATTTAAGCAAGGG
1 TCATTAGAAG-TTTACCTATTTAAGCAAGGG
*
35880197 TCATTAGAAGTTTAGCTATTTAAGCAAGGG
1 TCATTAGAAGTTTACCTATTTAAGCAAGGG
35880227 T
1 T
35880228 AGCCAATTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 3 0.10
30 26 0.90
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.34
Consensus pattern (30 bp):
TCATTAGAAGTTTACCTATTTAAGCAAGGG
Found at i:35881627 original size:16 final size:17
Alignment explanation
Indices: 35881606--35881648 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
35881596 ATTCAGATAC
*
35881606 AGATACAAAACATA-TT
1 AGATACAAAACAGATTT
*
35881622 AGATACAATGACAGATTT
1 AGATACAA-AACAGATTT
35881640 AGATACAAA
1 AGATACAAA
35881649 TGCAGAGTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 8 0.36
17 4 0.18
18 10 0.45
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.23
Consensus pattern (17 bp):
AGATACAAAACAGATTT
Found at i:35882341 original size:63 final size:63
Alignment explanation
Indices: 35882274--35882475 Score: 230
Period size: 63 Copynumber: 3.2 Consensus size: 63
35882264 CCCAAATCAC
* * *
35882274 TGAGTTAAACGACTTAGACACACGCTCGTGTCTCTAGCCCATGTGACCCTAATTCA-AAAATAG
1 TGAGTTACACGACTTAGACACACGCTCGTGTCTCTAGCCCGTGTGACCCTAATTCACAAAA-AA
* * * * * *
35882337 TGAGTTACACGACCTAGCCGCATG-TCTGTGTCTCTAGCTCGTGTGACCTTAATTCACAAAAAA
1 TGAGTTACACGACTTAGACACACGCTC-GTGTCTCTAGCCCGTGTGACCCTAATTCACAAAAAA
* * * *
35882400 TGAGTTACAC-AGCTTGGACACACGCCCGTGTCTCTAGCCTGTGTGACCCTAATTCACAAACAA
1 TGAGTTACACGA-CTTAGACACACGCTCGTGTCTCTAGCCCGTGTGACCCTAATTCACAAAAAA
*
35882463 TTAGTTACACGAC
1 TGAGTTACACGAC
35882476 CTGCCACACT
Statistics
Matches: 114, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
62 3 0.03
63 105 0.92
64 6 0.05
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (63 bp):
TGAGTTACACGACTTAGACACACGCTCGTGTCTCTAGCCCGTGTGACCCTAATTCACAAAAAA
Found at i:35883040 original size:4 final size:4
Alignment explanation
Indices: 35883027--35883063 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
35883017 GAGGAAAGGA
35883027 AAAG -AAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AA
35883064 TAAGAAGGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.09
4 29 0.91
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:35883090 original size:20 final size:23
Alignment explanation
Indices: 35883031--35883093 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 23
35883021 AAAGGAAAAG
*
35883031 AAGAAAGAAAG-A-AAGAA-AGA
1 AAGAAAGAAAGAATAAGAAGGGA
35883051 AAGAAAGAAAGAATAAGAAGGGA
1 AAGAAAGAAAGAATAAGAAGGGA
35883074 AA-AAAG-AAGAA-AAGAAGGGA
1 AAGAAAGAAAGAATAAGAAGGGA
35883094 GGAAGACAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
20 20 0.51
21 6 0.15
22 9 0.23
23 4 0.10
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.02
Consensus pattern (23 bp):
AAGAAAGAAAGAATAAGAAGGGA
Found at i:35885537 original size:16 final size:16
Alignment explanation
Indices: 35885518--35885552 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
35885508 TCCACTTAAG
35885518 TTTCTTTTCTTTATAT
1 TTTCTTTTCTTTATAT
*
35885534 TTTCTTTTCTTTTTAT
1 TTTCTTTTCTTTATAT
35885550 TTT
1 TTT
35885553 TTATCATTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTCTTTTCTTTATAT
Found at i:35887772 original size:12 final size:12
Alignment explanation
Indices: 35887751--35887784 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
35887741 CCACATGTCT
*
35887751 GTGTGCTAGGCC
1 GTGTGGTAGGCC
*
35887763 TTGTGGTAGGCC
1 GTGTGGTAGGCC
35887775 GTGTGGTAGG
1 GTGTGGTAGG
35887785 TCATGTAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.09, C:0.15, G:0.47, T:0.29
Consensus pattern (12 bp):
GTGTGGTAGGCC
Found at i:35888826 original size:32 final size:32
Alignment explanation
Indices: 35888771--35888909 Score: 181
Period size: 32 Copynumber: 4.4 Consensus size: 32
35888761 AAATGGCTAC
* *
35888771 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
35888802 AAGCCATCAGTAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
*
35888834 AAGCCATCAGTAACGGTAATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
35888866 AAGCAATCAGTAACGGTAATATGACCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
35888898 AAACTATCAGTA
1 AAGCCATCAGTA
35888910 GCATTGCAAC
Statistics
Matches: 96, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
31 10 0.10
32 86 0.90
ACGTcount: A:0.40, C:0.20, G:0.21, T:0.19
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGGCACA
Found at i:35889107 original size:11 final size:11
Alignment explanation
Indices: 35889091--35889133 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
35889081 AATCAGTCAT
35889091 ACAAATCACAG
1 ACAAATCACAG
*
35889102 ACAAATCAGTCAT
1 ACAAATCA--CAG
*
35889115 ACTAATCACAG
1 ACAAATCACAG
35889126 ACAAATCA
1 ACAAATCA
35889134 GTAATTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 17 0.65
13 9 0.35
ACGTcount: A:0.51, C:0.26, G:0.07, T:0.16
Consensus pattern (11 bp):
ACAAATCACAG
Found at i:35889108 original size:24 final size:24
Alignment explanation
Indices: 35889081--35889179 Score: 126
Period size: 24 Copynumber: 4.1 Consensus size: 24
35889071 TCATGCTCAG
35889081 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
*
35889105 AATCAGTCATACTAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
* **
35889129 AATCAGTAATTTAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
* ** *
35889153 AATTAGTCATTTACATCACAGACA
1 AATCAGTCATACAAATCACAGACA
35889177 AAT
1 AAT
35889180 TAATCATTTA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 67 1.00
ACGTcount: A:0.47, C:0.21, G:0.08, T:0.23
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAGACA
Found at i:35889180 original size:24 final size:24
Alignment explanation
Indices: 35889081--35889191 Score: 125
Period size: 24 Copynumber: 4.6 Consensus size: 24
35889071 TCATGCTCAG
** *
35889081 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATTTACATCACAGACA
*
35889105 AATCAGTCATACTA-ATCACAGACA
1 AATCAGTCAT-TTACATCACAGACA
* *
35889129 AATCAGTAATTTAAATCACAGACA
1 AATCAGTCATTTACATCACAGACA
*
35889153 AATTAGTCATTTACATCACAGACA
1 AATCAGTCATTTACATCACAGACA
* *
35889177 AATTAATCATTTACA
1 AATCAGTCATTTACA
35889192 CTTGAGGGGA
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
23 2 0.03
24 74 0.96
25 1 0.01
ACGTcount: A:0.47, C:0.21, G:0.07, T:0.25
Consensus pattern (24 bp):
AATCAGTCATTTACATCACAGACA
Found at i:35889252 original size:27 final size:26
Alignment explanation
Indices: 35889208--35889406 Score: 159
Period size: 27 Copynumber: 7.4 Consensus size: 26
35889198 GGGAAAAATA
* *
35889208 GTCA-TTTACCCTCTAGGGGCATTACG
1 GTCATTTTA-CCTATAGGGGTATTACG
* * *
35889234 GTCATTTTACCTTACAGGGGTATTTCA
1 GTCATTTTACC-TATAGGGGTATTACG
*
35889261 GTCATTTAACCCTAT-GGGTGTATTACG
1 GTCATTTTA-CCTATAGGG-GTATTACG
*
35889288 GTCATTTTATCCTATAGGGGCATTACG
1 GTCATTTTA-CCTATAGGGGTATTACG
* **
35889315 GTCATTTTACCCTATAGGGGTTTTTTG
1 GTCATTTTA-CCTATAGGGGTATTACG
* * *
35889342 GTCATTTTAACCTACAGGGGTATGATG
1 GTCATTTT-ACCTATAGGGGTATTACG
* * *
35889369 GTCATTTTGCCTTATTGGGGCATTACG
1 GTCATTTTACC-TATAGGGGTATTACG
*
35889396 ATCATTTTACC
1 GTCATTTTACC
35889407 CGACGAGGGT
Statistics
Matches: 137, Mismatches: 29, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
26 11 0.08
27 120 0.88
28 6 0.04
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.39
Consensus pattern (26 bp):
GTCATTTTACCTATAGGGGTATTACG
Found at i:35889295 original size:54 final size:52
Alignment explanation
Indices: 35889207--35889406 Score: 177
Period size: 54 Copynumber: 3.7 Consensus size: 52
35889197 GGGGAAAAAT
* * *
35889207 AGTCATTTACCCTCTAGGGGCATTACGGTCATTTTACCTTACAGGGGTATTTC
1 AGTCATTTACCCTATAGGGGTATTACGGTCATTTTACC-TACAGGGGTATTAC
* *
35889260 AGTCATTTAACCCTAT-GGGTGTATTACGGTCATTTTATCCTATAGGGGCATTAC
1 AGTCATTT-ACCCTATAGGG-GTATTACGGTCATTTTA-CCTACAGGGGTATTAC
* * ** * *
35889314 GGTCATTTTACCCTATAGGGGTTTTTTGGTCATTTTAACCTACAGGGGTATGAT
1 AGTCA-TTTACCCTATAGGGGTATTACGGTCATTTT-ACCTACAGGGGTATTAC
* * * * * *
35889368 GGTCATTTTGCCTTATTGGGGCATTACGATCATTTTACC
1 AGTCA-TTTACCCTATAGGGGTATTACGGTCATTTTACC
35889407 CGACGAGGGT
Statistics
Matches: 120, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
53 14 0.12
54 97 0.81
55 9 0.08
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (52 bp):
AGTCATTTACCCTATAGGGGTATTACGGTCATTTTACCTACAGGGGTATTAC
Found at i:35889308 original size:81 final size:81
Alignment explanation
Indices: 35889208--35889434 Score: 246
Period size: 81 Copynumber: 2.8 Consensus size: 81
35889198 GGGAAAAATA
* *
35889208 GTCA-TTTACCCTCTAGGGGCATTACGGTCATTTTACCTTACAGGGGTATTTCAGTCATTTAACC
1 GTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTTCAGTCATTTAACC
* *
35889272 CTA-TGGGTGTATTACG
66 CTACAGGG-GTATGACG
* * * **
35889288 GTCATTTTATCCTATAGGGGCATTACGGTCATTTTACCCTATAGGGGTTTTTTGGTCATTTTAA-
1 GTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTTCAGTCA-TTTAAC
*
35889352 CCTACAGGGGTATGATG
65 CCTACAGGGGTATGACG
* * * * * * *
35889369 GTCATTTTGCCTTATTGGGGCATTACGATCATTTTACCCGAC-GAGGGTATTTCAGTTATTTTAC
1 GTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTACAG-GGGTATTTCAGTCATTTAAC
35889433 CC
65 CC
35889435 ATCGAGGGTA
Statistics
Matches: 120, Mismatches: 22, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
80 9 0.08
81 103 0.86
82 8 0.07
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (81 bp):
GTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTTCAGTCATTTAACC
CTACAGGGGTATGACG
Found at i:35889429 original size:27 final size:27
Alignment explanation
Indices: 35889397--35889582 Score: 178
Period size: 27 Copynumber: 6.9 Consensus size: 27
35889387 GGCATTACGA
35889397 TCATTTTACCCGA-CGAGGGTATTTCAG
1 TCATTTTACCC-ATCGAGGGTATTTCAG
*
35889424 TTATTTTACCCATCGAGGGTATTTCAG
1 TCATTTTACCCATCGAGGGTATTTCAG
* * * *
35889451 TCATTTCACTCATTGAGGGTATTTTAG
1 TCATTTTACCCATCGAGGGTATTTCAG
* *
35889478 TAATTTTACCCATCGAGGGTATTTCGG
1 TCATTTTACCCATCGAGGGTATTTCAG
** ** **
35889505 TCATTTTACCCATTAAATGTATTTTGG
1 TCATTTTACCCATCGAGGGTATTTCAG
* * *
35889532 TAATTTTACCTATCAAGGGTATTTC-G
1 TCATTTTACCCATCGAGGGTATTTCAG
* *
35889558 ATAATTTTACCCGTCGAGGGTATTT
1 -TCATTTTACCCATCGAGGGTATTT
35889583 TAATCATTAA
Statistics
Matches: 130, Mismatches: 27, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
26 2 0.02
27 128 0.98
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (27 bp):
TCATTTTACCCATCGAGGGTATTTCAG
Found at i:35889455 original size:54 final size:53
Alignment explanation
Indices: 35889397--35889584 Score: 207
Period size: 54 Copynumber: 3.5 Consensus size: 53
35889387 GGCATTACGA
* *
35889397 TCATTTTACCCGA-CGAGGGTATTTCAGTTATTTTACCCATCGAGGGTATTTCAG
1 TCATTTTACCC-ATCGAGGGTATTTTAGTAATTTTACCCATCGAGGGTATTTC-G
* * *
35889451 TCATTTCACTCATTGAGGGTATTTTAGTAATTTTACCCATCGAGGGTATTTCGG
1 TCATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATCGAGGGTATTTC-G
** ** * * *
35889505 TCATTTTACCCATTAAATGTATTTTGGTAATTTTACCTATCAAGGGTATTTCG
1 TCATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATCGAGGGTATTTCG
* *
35889558 ATAATTTTACCCGTCGAGGGTATTTTA
1 -TCATTTTACCCATCGAGGGTATTTTA
35889585 ATCATTAAAC
Statistics
Matches: 111, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
53 2 0.02
54 109 0.98
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (53 bp):
TCATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATCGAGGGTATTTCG
Found at i:35901955 original size:16 final size:16
Alignment explanation
Indices: 35901934--35901964 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35901924 TTCACTGTTA
*
35901934 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
35901950 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
35901965 GCATGCATAG
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:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:35903356 original size:11 final size:11
Alignment explanation
Indices: 35903340--35903364 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
35903330 AATCAAGCCT
35903340 TAAAACATATA
1 TAAAACATATA
35903351 TAAAACATATA
1 TAAAACATATA
35903362 TAA
1 TAA
35903365 TAAGACCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (11 bp):
TAAAACATATA
Found at i:35906891 original size:19 final size:19
Alignment explanation
Indices: 35906863--35906902 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
35906853 ATTAATTTTG
*
35906863 ATCAAGTAAAATTAAATTA
1 ATCAAATAAAATTAAATTA
35906882 ATCAAATAAAATTAAATTA
1 ATCAAATAAAATTAAATTA
35906901 AT
1 AT
35906903 ATGATACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.33
Consensus pattern (19 bp):
ATCAAATAAAATTAAATTA
Found at i:35908961 original size:20 final size:21
Alignment explanation
Indices: 35908923--35908961 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
35908913 TTAAAAAAAT
**
35908923 TATATTTATAATATTATAACA
1 TATATTTATAATAAAATAACA
35908944 TATA-TTATAATAAAATAA
1 TATATTTATAATAAAATAA
35908962 AAGAAACAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (21 bp):
TATATTTATAATAAAATAACA
Found at i:35911447 original size:34 final size:34
Alignment explanation
Indices: 35911404--35911471 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
35911394 CCCTAATACT
* *
35911404 TACTAATACT-AAAATGGGCTTAGGCTTAAACTGA
1 TACTAATACTGAAAA-AGGCTTAGGCCTAAACTGA
*
35911438 TACTGATACTGAAAAAGGCTTAGGCCTAAACTGA
1 TACTAATACTGAAAAAGGCTTAGGCCTAAACTGA
35911472 GATTATCTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 26 0.87
35 4 0.13
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.26
Consensus pattern (34 bp):
TACTAATACTGAAAAAGGCTTAGGCCTAAACTGA
Found at i:35918522 original size:34 final size:34
Alignment explanation
Indices: 35918467--35918571 Score: 117
Period size: 34 Copynumber: 3.1 Consensus size: 34
35918457 GATAACCGTC
**
35918467 ACTGTTACTG-TACTGTGATGGGCTAAGGTCCT-A
1 ACTGTTACTGATACTGAAATGGGCTAAGG-CCTAA
*
35918500 A-TGCTTACTGATACTGAAATGGGCTTAGGCCTAA
1 ACTG-TTACTGATACTGAAATGGGCTAAGGCCTAA
* * *
35918534 ACTGATACTGATACTGAAATGGGCTTAGGCCCAA
1 ACTGTTACTGATACTGAAATGGGCTAAGGCCTAA
35918568 ACTG
1 ACTG
35918572 AGATTATCTA
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
32 2 0.03
33 10 0.16
34 49 0.78
35 2 0.03
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (34 bp):
ACTGTTACTGATACTGAAATGGGCTAAGGCCTAA
Found at i:35918572 original size:34 final size:34
Alignment explanation
Indices: 35918505--35918572 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
35918495 TCCTAATGCT
*
35918505 TACTGATACTGAAATGGGCTTAGGCCTAAACTGA
1 TACTGATACTGAAATGGGCTTAGGCCCAAACTGA
35918539 TACTGATACTGAAATGGGCTTAGGCCCAAACTGA
1 TACTGATACTGAAATGGGCTTAGGCCCAAACTGA
35918573 GATTATCTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (34 bp):
TACTGATACTGAAATGGGCTTAGGCCCAAACTGA
Found at i:35926532 original size:44 final size:44
Alignment explanation
Indices: 35926482--35926570 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
35926472 AATATCAACG
* *
35926482 GTCTGCTACACTACAACTTTAGGGAGATGAGA-TCAGTAGCTTCA
1 GTCTGCTACACTACAACTTCAGGGAGATAAGACTCA-TAGCTTCA
* * * *
35926526 GTCTGCTCCTCTGCAACTTCAGGGAGATAAGACTCATATCTTCA
1 GTCTGCTACACTACAACTTCAGGGAGATAAGACTCATAGCTTCA
35926570 G
1 G
35926571 CCTACTCCAC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 35 0.92
45 3 0.08
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (44 bp):
GTCTGCTACACTACAACTTCAGGGAGATAAGACTCATAGCTTCA
Found at i:35928333 original size:27 final size:27
Alignment explanation
Indices: 35928302--35928479 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
35928292 TAAATTGTAC
35928302 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
35928329 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35928355 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
35928383 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
35928411 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35928438 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
35928465 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35928480 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:35928416 original size:82 final size:81
Alignment explanation
Indices: 35928303--35928458 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
35928293 AAATTGTACA
* *
35928303 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
35928367 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
35928384 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
35928449 TGCGAGTTGA
65 TGCGAATTGA
35928459 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:35928470 original size:82 final size:81
Alignment explanation
Indices: 35928299--35928479 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
35928289 GATTAAATTG
* *
35928299 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
35928364 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
35928380 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
35928444 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
35928462 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
35928480 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:35930483 original size:46 final size:46
Alignment explanation
Indices: 35930430--35930607 Score: 270
Period size: 46 Copynumber: 3.9 Consensus size: 46
35930420 TTCGCTACCA
35930430 GATCTACTCTGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTC
1 GATCTACTCTGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTC
35930476 GATCTACTCTGCTGCCAAATACAGGAAGACAAGATCTGCTATC-TC
1 GATCTACTCTGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTC
* ** *
35930521 TGATCTACT-TCGCTGCCAAGTACAGGAAGACAAGATCTATTATTTTC
1 -GATCTACTCT-GCTGCCAAATACAGGAAGACAAGATCTGCTATCTTC
* *
35930568 GATCTACTCTGCTGCCAAATACATGAAGACCAGATCTGCT
1 GATCTACTCTGCTGCCAAATACAGGAAGACAAGATCTGCT
35930608 GCTTCTAGTC
Statistics
Matches: 119, Mismatches: 9, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
45 3 0.03
46 113 0.95
47 3 0.03
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (46 bp):
GATCTACTCTGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTC
Found at i:35942724 original size:14 final size:13
Alignment explanation
Indices: 35942697--35942721 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35942687 AATATAAAGA
35942697 ACATATTTAAAAT
1 ACATATTTAAAAT
35942710 ACATATTTAAAA
1 ACATATTTAAAA
35942722 ATATGAAGAA
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:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (13 bp):
ACATATTTAAAAT
Found at i:35942969 original size:16 final size:15
Alignment explanation
Indices: 35942942--35942979 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
35942932 TAAATGAGCA
*
35942942 AATAACAATAACAAT
1 AATAATAATAACAAT
35942957 AATTAATAATAACAAT
1 AA-TAATAATAACAAT
35942973 AATAATA
1 AATAATA
35942980 TGAAATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (15 bp):
AATAATAATAACAAT
Found at i:35947562 original size:10 final size:10
Alignment explanation
Indices: 35947547--35947582 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
35947537 AATTTTTAAA
35947547 AAAATTATTT
1 AAAATTATTT
35947557 AAAATTATTT
1 AAAATTATTT
*
35947567 AAAA-TGTTT
1 AAAATTATTT
35947576 AAAATTA
1 AAAATTA
35947583 ATCCGGACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 8 0.35
10 15 0.65
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (10 bp):
AAAATTATTT
Found at i:35955510 original size:250 final size:252
Alignment explanation
Indices: 35955067--35955560 Score: 706
Period size: 250 Copynumber: 2.0 Consensus size: 252
35955057 ACTTTTGGGG
35955067 TGACACTTTCCTAAGTGTTCGGATAAACTTGCCAACATACGCTTTGGCCAACACTTTATATAAGG
1 TGACACTTTCCTAAGTGTTCGGATAAACTTGCCAACATACGCTTTGGCCAACACTTTATATAAGG
* * * *
35955132 GTTGGGGTATGCATGCCTAAGGCAACGCTTAAATAAGAGTTAGCTTTGTCCAGTCCTAAGACGAC
66 GTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCAGCTTTGTCCAGACCTAAGACAAC
* * *
35955197 ATTTTCCTACGTGTTGGGATACACTTGCCGACATACGCTTTGGCCAACTCTTTCTATAAGGGTTA
131 ACTTTCCTAAGTGTTGGGATACACTTGCCAACATACGCTTTGGCCAACTCTTTCTATAAGGGTTA
* * * *
35955262 GGATATGCTTGCTTAAGGTAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATAC
196 GGACATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATAC
* * * * * * *
35955319 TGACACTTTCTTAAGTGTTGGGATAGACTTGTCGACATACGTTTTGGCC-A-ACTTTGTATAAGG
1 TGACACTTTCCTAAGTGTTCGGATAAACTTGCCAACATACGCTTTGGCCAACACTTTATATAAGG
* * *
35955382 GTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCA-ACACTATGCCAA
66 GTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCAGCTTTGTCCAGAC-CTAAGACAA
* * * *
35955446 CACTTTCCTAAGTGTTGGGATAGACTTGCCAACATATGCTTTGGTCAACTCTTTGTATAAGGGTT
130 CACTTTCCTAAGTGTTGGGATACACTTGCCAACATACGCTTTGGCCAACTCTTTCTATAAGGGTT
* * *
35955511 GGGACATGCATGCCTAAGGCAACACTTGAATAAGAGTTGGCTTTGTCCAA
195 AGGACATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCAA
35955561 TAGTATGCCT
Statistics
Matches: 213, Mismatches: 28, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
249 1 0.00
250 168 0.79
251 1 0.00
252 43 0.20
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (252 bp):
TGACACTTTCCTAAGTGTTCGGATAAACTTGCCAACATACGCTTTGGCCAACACTTTATATAAGG
GTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCAGCTTTGTCCAGACCTAAGACAAC
ACTTTCCTAAGTGTTGGGATACACTTGCCAACATACGCTTTGGCCAACTCTTTCTATAAGGGTTA
GGACATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATAC
Found at i:35955568 original size:126 final size:126
Alignment explanation
Indices: 35955068--35955569 Score: 659
Period size: 126 Copynumber: 4.0 Consensus size: 126
35955058 CTTTTGGGGT
* * * *
35955068 GACACTTTCCTAAGTGTTCGGATAAACTTGCCAACATACGCTTTGGCCAACACTTTATATAAGGG
1 GACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGCTTTGGCCAACTCTTTGTATAAGGG
* * ** * * *
35955133 TTGGGGTATGCATGCCTAAGGCAACGCTTAAATAAGAGTTAGCTTTGTCCAGTC-CTAAGAC
66 TTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCA-ACACTATGCC
* * * * *
35955194 GACATTTTCCTACGTGTTGGGATACACTTGCCGACATACGCTTTGGCCAACTCTTTCTATAAGGG
1 GACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGCTTTGGCCAACTCTTTGTATAAGGG
* * * * * *
35955259 TTAGGATATGCTTGCTTAAGGTAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATACT
66 TTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATGCC
* * * *
35955320 GACACTTTCTTAAGTGTTGGGATAGACTTGTCGACATACGTTTTGGCCAA--CTTTGTATAAGGG
1 GACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGCTTTGGCCAACTCTTTGTATAAGGG
*
35955383 TTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAACACTATGCC
66 TTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATGCC
* * *
35955444 AACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATATGCTTTGGTCAACTCTTTGTATAAGGG
1 GACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGCTTTGGCCAACTCTTTGTATAAGGG
* * * * *
35955509 TTGGGACATGCATGCCTAAGGCAACACTTGAATAAGAGTTGGCTTTGTCCAATAGTATGCC
66 TTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATGCC
35955570 TAAGGCAACA
Statistics
Matches: 326, Mismatches: 47, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
124 109 0.33
125 1 0.00
126 216 0.66
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (126 bp):
GACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGCTTTGGCCAACTCTTTGTATAAGGG
TTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATGCC
Found at i:35956544 original size:130 final size:130
Alignment explanation
Indices: 35956311--35956961 Score: 1124
Period size: 130 Copynumber: 5.0 Consensus size: 130
35956301 ACACTTAATG
* *
35956311 ATGAAGTTATGGTATTATGAATTGTTTACGGTAAATTCAAATTTTAAA-TTGTTTTTAATCATTT
1 ATGAAGTTATGGTATTATGAATTGTTTAGGGTAAATTCAGATTTTAAACTT-TTTTTAATCATTT
*
35956375 TGAACTTTAAGTTATTTTTGGTCGAGTCAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGAGT
65 TGAATTTTAAGTTATTTTTGGTCGAGTCAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGAGT
35956440 T
130 T
*
35956441 ATGAAGTTATAGTATTATGAATTGTTTAGGGTAAATTCAGATTTTAAACTTTTTTTAATCATTTT
1 ATGAAGTTATGGTATTATGAATTGTTTAGGGTAAATTCAGATTTTAAACTTTTTTTAATCATTTT
*
35956506 GAATTTTAAGTTATTTTTGGTTGAGTCAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGAGTT
66 GAATTTTAAGTTATTTTTGGTCGAGTCAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGAGTT
* * *
35956571 ATGAAGTTATGGTATTATGAATTGTTTAGGGAAAATTCAGATTTAAAAATTTTTTTAATCATTTT
1 ATGAAGTTATGGTATTATGAATTGTTTAGGGTAAATTCAGATTTTAAACTTTTTTTAATCATTTT
* * *
35956636 GAATTTTAAGTTATTTTTGCTCAAGTCAATTTGGGTTTAGCTTATTCAAGTTTGTTAATCGAGTT
66 GAATTTTAAGTTATTTTTGGTCGAGTCAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGAGTT
*
35956701 ATGAAGTTATGCTATTATGAATTGTTTAGGGTAAATTCAGATTTTTAAACTTTTTTTAATCATTT
1 ATGAAGTTATGGTATTATGAATTGTTTAGGGTAAATTCAGA-TTTTAAACTTTTTTTAATCATTT
*
35956766 TGAATTTTAAGTTATTTTTGGTTGAGTCAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGAGT
65 TGAATTTTAAGTTATTTTTGGTCGAGTCAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGAGT
35956831 T
130 T
* * *
35956832 ATGAAGTTATGGTATTATGAATTGTTTAGGGAAAATTCAGATTTAAAATTTTTTTTAATCATTTT
1 ATGAAGTTATGGTATTATGAATTGTTTAGGGTAAATTCAGATTTTAAACTTTTTTTAATCATTTT
*
35956897 GAATTTTAAGTTATTTTTGGTCGAGTCAATTTGGGTTTAGCTTATTCAAGTTTGTTAATCGAGTT
66 GAATTTTAAGTTATTTTTGGTCGAGTCAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGAGTT
35956962 TTTCAAGTTA
Statistics
Matches: 492, Mismatches: 27, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
130 368 0.75
131 124 0.25
ACGTcount: A:0.28, C:0.06, G:0.18, T:0.48
Consensus pattern (130 bp):
ATGAAGTTATGGTATTATGAATTGTTTAGGGTAAATTCAGATTTTAAACTTTTTTTAATCATTTT
GAATTTTAAGTTATTTTTGGTCGAGTCAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGAGTT
Found at i:35956865 original size:261 final size:260
Alignment explanation
Indices: 35956311--35956961 Score: 1180
Period size: 261 Copynumber: 2.5 Consensus size: 260
35956301 ACACTTAATG
* * * *
35956311 ATGAAGTTATGGTATTATGAATTGTTTACGGTAAATTCAAATTT-TAAATTGTTTTTAATCATTT
1 ATGAAGTTATGGTATTATGAATTGTTTAGGGAAAATTCAGATTTAAAAATT-TTTTTAATCATTT
* *
35956375 TGAACTTTAAGTTATTTTTGGTCGAGTCAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGAGT
65 TGAATTTTAAGTTATTTTTGGTCGAGTCAATTTGGGTTTAGCTTATTCAAGTTTGTTAATCGAGT
35956440 TATGAAGTTATAGTATTATGAATTGTTTAGGGTAAATTCAGATTTTAAACTTTTTTTAATCATTT
130 TATGAAGTTATAGTATTATGAATTGTTTAGGGTAAATTCAGATTTTAAACTTTTTTTAATCATTT
35956505 TGAATTTTAAGTTATTTTTGGTTGAGTCAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGAGT
195 TGAATTTTAAGTTATTTTTGGTTGAGTCAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGAGT
35956570 T
260 T
35956571 ATGAAGTTATGGTATTATGAATTGTTTAGGGAAAATTCAGATTTAAAAATTTTTTTAATCATTTT
1 ATGAAGTTATGGTATTATGAATTGTTTAGGGAAAATTCAGATTTAAAAATTTTTTTAATCATTTT
* *
35956636 GAATTTTAAGTTATTTTTGCTCAAGTCAATTTGGGTTTAGCTTATTCAAGTTTGTTAATCGAGTT
66 GAATTTTAAGTTATTTTTGGTCGAGTCAATTTGGGTTTAGCTTATTCAAGTTTGTTAATCGAGTT
35956701 ATGAAGTTAT-GCTATTATGAATTGTTTAGGGTAAATTCAGATTTTTAAACTTTTTTTAATCATT
131 ATGAAGTTATAG-TATTATGAATTGTTTAGGGTAAATTCAGA-TTTTAAACTTTTTTTAATCATT
35956765 TTGAATTTTAAGTTATTTTTGGTTGAGTCAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGAG
194 TTGAATTTTAAGTTATTTTTGGTTGAGTCAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGAG
35956830 TT
259 TT
*
35956832 ATGAAGTTATGGTATTATGAATTGTTTAGGGAAAATTCAGATTTAAAATTTTTTTTAATCATTTT
1 ATGAAGTTATGGTATTATGAATTGTTTAGGGAAAATTCAGATTTAAAAATTTTTTTAATCATTTT
35956897 GAATTTTAAGTTATTTTTGGTCGAGTCAATTTGGGTTTAGCTTATTCAAGTTTGTTAATCGAGTT
66 GAATTTTAAGTTATTTTTGGTCGAGTCAATTTGGGTTTAGCTTATTCAAGTTTGTTAATCGAGTT
35956962 TTTCAAGTTA
Statistics
Matches: 377, Mismatches: 11, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
259 1 0.00
260 155 0.41
261 221 0.59
ACGTcount: A:0.28, C:0.06, G:0.18, T:0.48
Consensus pattern (260 bp):
ATGAAGTTATGGTATTATGAATTGTTTAGGGAAAATTCAGATTTAAAAATTTTTTTAATCATTTT
GAATTTTAAGTTATTTTTGGTCGAGTCAATTTGGGTTTAGCTTATTCAAGTTTGTTAATCGAGTT
ATGAAGTTATAGTATTATGAATTGTTTAGGGTAAATTCAGATTTTAAACTTTTTTTAATCATTTT
GAATTTTAAGTTATTTTTGGTTGAGTCAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGAGTT
Found at i:35969629 original size:44 final size:44
Alignment explanation
Indices: 35969580--35970011 Score: 526
Period size: 44 Copynumber: 9.9 Consensus size: 44
35969570 ATCTACTTCG
* * * * *
35969580 AATCTTCTACCTATTTCGCTACTAGTCAGGGAGATAGGACTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* * * *
35969624 AATCTTCCACCTATTTCGCTTCTGGTCAGGGAGATAGGACATAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* * * * * **
35969668 AATCTTCAACCTATTCCTCTACTGTTTAGGGATCTAGGACTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* * * *
35969712 AATCTTCCACCTATT-CACTGCTGTTCAGGGAGCTAGAACATAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* *
35969755 AATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGGCTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* * ** * *
35969799 AATCTTCCACCTACTCCGCTATTGGTTAGGGAGA-AGGAATTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
*
35969842 AATCTTCCACCTATTCCGCTGCTGGTCAGGGAGATAGGACTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* * **
35969886 AATCTTCCACCTATTCCACTACTGTTCAGGGATCTAGGACTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* *
35969930 AATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGACTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
*
35969974 AATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGG
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGG
35970012 GCTTTGTGAT
Statistics
Matches: 337, Mismatches: 49, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
43 73 0.22
44 264 0.78
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (44 bp):
AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
Found at i:35969780 original size:131 final size:131
Alignment explanation
Indices: 35969580--35970011 Score: 551
Period size: 131 Copynumber: 3.3 Consensus size: 131
35969570 ATCTACTTCG
* * * * * * * *
35969580 AATCTTCTACCTATTTCGCTACTAGTCAGGGAGATAGGACTTACAATCTTCCACCTATTTCGCTT
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATCTTCCACCTATTCCACTA
* * *
35969645 CTGGTCAGGGAGATAGGACATACAATCTTCAACCTATTCCTCTACTGTTTAGGGATCTAGGACTT
66 CTGGTCAGGGAGATAGGACTTACAATCTTCCACCTATTCCACTACTGTTTAGGGA-CTAGGACTT
35969710 AC
130 AC
* * * * * *
35969712 AATCTTCCACCTATT-CACTGCTGTTCAGGGAGCTAGAACATACAATCTTCAACCTATTCCACTG
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATCTTCCACCTATTCCACTA
* * * * * ** *
35969776 CTGGTCAGGGAGATAGGGCTTACAATCTTCCACCTACTCCGCTATTGGTTAGGGAGAAGGAATTA
66 CTGGTCAGGGAGATAGGACTTACAATCTTCCACCTATTCCACTACTGTTTAGGGACTAGGACTTA
35969841 C
131 C
*
35969842 AATCTTCCACCTATTCCGCTGCTGGTCAGGGAGATAGGACTTACAATCTTCCACCTATTCCACTA
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATCTTCCACCTATTCCACTA
* ** * *
35969907 CTGTTCAGGGATCTAGGACTTACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGACTT
66 CTGGTCAGGGAGATAGGACTTACAATCTTCCACCTATTCCACTACTGTTTAGGGA-CTAGGACTT
35969972 AC
130 AC
*
35969974 AATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGG
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGG
35970012 GCTTTGTGAT
Statistics
Matches: 254, Mismatches: 44, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
130 23 0.09
131 173 0.68
132 58 0.23
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (131 bp):
AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATCTTCCACCTATTCCACTA
CTGGTCAGGGAGATAGGACTTACAATCTTCCACCTATTCCACTACTGTTTAGGGACTAGGACTTA
C
Found at i:35980948 original size:27 final size:27
Alignment explanation
Indices: 35980918--35981095 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
35980908 ATATTGAGCC
* *
35980918 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
35980945 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
35980972 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
35981000 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
35981027 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
35981054 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
35981081 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35981096 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 104 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:35981057 original size:82 final size:81
Alignment explanation
Indices: 35980939--35981094 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
35980929 TGCTATATAA
* * *
35980939 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
35981004 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
35981021 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
35981085 CACTTAGTGC
65 CACTTAGTGC
35981095 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:35985022 original size:23 final size:22
Alignment explanation
Indices: 35984983--35985026 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
35984973 GAATAGACTC
*
35984983 ATTCAGCTTCAATTTCATATATT
1 ATTCAGCCTCAATTTCA-ATATT
35985006 ATTCAGCCTCTAA-TTCAATAT
1 ATTCAGCCTC-AATTTCAATAT
35985027 CCACCATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 13 0.68
24 2 0.11
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.43
Consensus pattern (22 bp):
ATTCAGCCTCAATTTCAATATT
Found at i:35985321 original size:45 final size:45
Alignment explanation
Indices: 35985257--35985347 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
35985247 AACAGATACT
* *
35985257 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
35985302 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
35985347 C
1 C
35985348 AGTTCACATT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:35985458 original size:50 final size:50
Alignment explanation
Indices: 35985352--35985524 Score: 176
Period size: 50 Copynumber: 3.4 Consensus size: 50
35985342 ATGTCCAGTT
* * * ** *
35985352 CACATTGTACTACACATGTGACCATTACCATCCGATACACATAGTAGCCTG
1 CACATAGTACTACACACGTGACAAACATCATCCG-TACACATAGTAGCCTG
*
35985403 CACATAGTACTACACACGTGATCGAAAC-T-ATCCGTACGCATAGTAGCCTG
1 CACATAGTACTACACACGTGA-C-AAACATCATCCGTACACATAGTAGCCTG
* *
35985453 CACATAGTACTACACA--T-ACAACCTATCATTCCGGTACACGTAGTAGCCTG
1 CACATAGTACTACACACGTGACAAAC-ATCA-TCC-GTACACATAGTAGCCTG
35985503 CACATAGTACTACACACGTGAC
1 CACATAGTACTACACACGTGAC
35985525 CATCACTTTC
Statistics
Matches: 102, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
45 3 0.03
46 1 0.01
47 2 0.02
48 2 0.02
49 3 0.03
50 62 0.61
51 24 0.24
52 2 0.02
53 3 0.03
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.23
Consensus pattern (50 bp):
CACATAGTACTACACACGTGACAAACATCATCCGTACACATAGTAGCCTG
Found at i:35989291 original size:50 final size:50
Alignment explanation
Indices: 35989232--35989329 Score: 178
Period size: 50 Copynumber: 2.0 Consensus size: 50
35989222 ATACATGGCA
* *
35989232 AGTACTTCTTATTCATTATAATTTGGAACATTGGGCTTGTATGAAACACC
1 AGTACTTCTTATTCATTATAATTTGGAACATTAGGCATGTATGAAACACC
35989282 AGTACTTCTTATTCATTATAATTTGGAACATTAGGCATGTATGAAACA
1 AGTACTTCTTATTCATTATAATTTGGAACATTAGGCATGTATGAAACA
35989330 ATCATTGATG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (50 bp):
AGTACTTCTTATTCATTATAATTTGGAACATTAGGCATGTATGAAACACC
Found at i:35991723 original size:12 final size:12
Alignment explanation
Indices: 35991706--35991731 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
35991696 TGTAACTTAA
35991706 TAATTTTAGTTT
1 TAATTTTAGTTT
35991718 TAATTTTAGTTT
1 TAATTTTAGTTT
35991730 TA
1 TA
35991732 GCATCTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (12 bp):
TAATTTTAGTTT
Found at i:35997455 original size:30 final size:30
Alignment explanation
Indices: 35997411--35997484 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 30
35997401 GCATTTCCAC
* * *
35997411 ACGGGATGGCCACATGCCCGTGTGAGCCAT
1 ACGGGATGGACACATGCCCGTGTCAGCCAG
* *
35997441 ACGGGTTGGACACATGGCCGTGTCAGCCAG
1 ACGGGATGGACACATGCCCGTGTCAGCCAG
* *
35997471 ACGGGCTAGACACA
1 ACGGGATGGACACA
35997485 AGCACATGTC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.23, C:0.28, G:0.34, T:0.15
Consensus pattern (30 bp):
ACGGGATGGACACATGCCCGTGTCAGCCAG
Found at i:35998885 original size:75 final size:75
Alignment explanation
Indices: 35998795--35998947 Score: 252
Period size: 75 Copynumber: 2.0 Consensus size: 75
35998785 CAGTTGTCCC
* * * ** *
35998795 ATAATTTTTTGATGTCATGGGAAACAGGTTGACATCATGTTTGCAACGTGTTGACTGCTTCTATT
1 ATAACTTTTTGATGTCATGAGAAACAGGTTGACAACATGTTCACAACATGTTGACTGCTTCTATT
35998860 AGGATTTTGT
66 AGGATTTTGT
35998870 ATAACTTTTTGATGTCATGAGAAACAGGTTGACAACATGTTCACAACATGTTGACTGCTTCTATT
1 ATAACTTTTTGATGTCATGAGAAACAGGTTGACAACATGTTCACAACATGTTGACTGCTTCTATT
35998935 AGGATTTTGT
66 AGGATTTTGT
35998945 ATA
1 ATA
35998948 TATATTAATA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.39
Consensus pattern (75 bp):
ATAACTTTTTGATGTCATGAGAAACAGGTTGACAACATGTTCACAACATGTTGACTGCTTCTATT
AGGATTTTGT
Found at i:36004236 original size:44 final size:44
Alignment explanation
Indices: 36004151--36004236 Score: 127
Period size: 44 Copynumber: 2.0 Consensus size: 44
36004141 TGTAAAATGA
* * * * *
36004151 AAGTTGTGATAATTATACATTTAAAAATAGTTATAATTTAATAC
1 AAGTTGTGATAAGTACACATTTAAAAATAATAATAAGTTAATAC
36004195 AAGTTGTGATAAGTACACATTTAAAAATAATAATAAGTTAAT
1 AAGTTGTGATAAGTACACATTTAAAAATAATAATAAGTTAAT
36004237 TTACCATTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.37
Consensus pattern (44 bp):
AAGTTGTGATAAGTACACATTTAAAAATAATAATAAGTTAATAC
Found at i:36005371 original size:29 final size:30
Alignment explanation
Indices: 36005339--36005397 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
36005329 TATGATTTAA
*
36005339 TGTGCAATTGTATTTATG-AATTTTAATTT
1 TGTGCAATTGTATATATGAAATTTTAATTT
* *
36005368 TGTGTAATTTTATATATGAAATTTTAATTT
1 TGTGCAATTGTATATATGAAATTTTAATTT
36005398 GATCCAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.56
Consensus pattern (30 bp):
TGTGCAATTGTATATATGAAATTTTAATTT
Found at i:36005623 original size:29 final size:30
Alignment explanation
Indices: 36005589--36005650 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 30
36005579 ATTTCACATG
*
36005589 TACAATT-ACACCAAA-CTAAAATTCATGTA
1 TACAATTCACACCAAATC-AAAACTCATGTA
*
36005618 TACAATTGCACATCAAATCAAAACTCATGTA
1 TACAATT-CACACCAAATCAAAACTCATGTA
36005649 TA
1 TA
36005651 ATTTTGAGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 7 0.25
31 20 0.71
32 1 0.04
ACGTcount: A:0.47, C:0.21, G:0.05, T:0.27
Consensus pattern (30 bp):
TACAATTCACACCAAATCAAAACTCATGTA
Found at i:36010299 original size:17 final size:17
Alignment explanation
Indices: 36010266--36010299 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
36010256 AAAATTTATT
* *
36010266 TTAAAAATATTTTAAAA
1 TTAAAAAAATTTAAAAA
36010283 TTAAAAAAATTTAAAAA
1 TTAAAAAAATTTAAAAA
36010300 AAGTATTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TTAAAAAAATTTAAAAA
Found at i:36010310 original size:41 final size:41
Alignment explanation
Indices: 36010230--36010343 Score: 138
Period size: 41 Copynumber: 2.7 Consensus size: 41
36010220 CCAAAAAATT
* **
36010230 TATTTTAAAAATTAAAACAAAAATAAAAAATTTATTTTAAAAA
1 TATTTT-AAAATTAAAA-AAATATAAAAAAAGTATTTTAAAAA
* *
36010273 TATTTTAAAATTAAAAAAATTTAAAAAAAGTATTTTAAAAG
1 TATTTTAAAATTAAAAAAATATAAAAAAAGTATTTTAAAAA
* *
36010314 TATTTTAAAATTTAAAAAATAAATAAAAAA
1 TATTTTAAAATTAAAAAAATATA-AAAAAA
36010344 TAAAAAAATT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
41 40 0.65
42 16 0.26
43 6 0.10
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (41 bp):
TATTTTAAAATTAAAAAAATATAAAAAAAGTATTTTAAAAA
Found at i:36013894 original size:27 final size:27
Alignment explanation
Indices: 36013511--36013894 Score: 390
Period size: 27 Copynumber: 14.2 Consensus size: 27
36013501 GGGTATAAAA
* *
36013511 GTCATTTTATCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
36013538 GTCATTTTACCTTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
*
36013565 GTCATTTTACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
36013592 GTTACTTTACCCTAT-AGGGGTATTTCG
1 GTCATTTTACCCTATGA-GGGTATTTCG
* *
36013619 ATCATGTTACCCTAT-AGGGGTATTTCG
1 GTCATTTTACCCTATGA-GGGTATTTCG
* *
36013646 ATCATGTTACCCTAT-AGGGGTATTTCG
1 GTCATTTTACCCTATGA-GGGTATTTCG
* *
36013673 ATCATTCTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
*
36013700 GTCATTTTACCCTAT-AGGGGTATTTCA
1 GTCATTTTACCCTATGA-GGGTATTTCG
* * *
36013727 ATTATTCTACCCTAT-AGAGGTATTTCG
1 GTCATTTTACCCTATGAG-GGTATTTCG
*
36013754 GTCATTTTA-CCT-TCGAGGGGGTATTTCA
1 GTCATTTTACCCTAT-GA--GGGTATTTCG
* * *
36013782 GTCATTCTACTCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
36013809 GTCATTTTACCCTATTAGGGTATTTCA
1 GTCATTTTACCCTATGAGGGTATTTCG
36013836 GTCATTTTACCCT-TCGAGGGTATTTCG
1 GTCATTTTACCCTAT-GAGGGTATTTCG
* *
36013863 ATCATTTTACCCT-TCGAGGGTATTTTG
1 GTCATTTTACCCTAT-GAGGGTATTTCG
36013890 GTCAT
1 GTCAT
36013895 AACAGTGTAT
Statistics
Matches: 307, Mismatches: 39, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
25 1 0.00
26 7 0.02
27 277 0.90
28 17 0.06
29 4 0.01
30 1 0.00
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.41
Consensus pattern (27 bp):
GTCATTTTACCCTATGAGGGTATTTCG
Found at i:36013958 original size:19 final size:19
Alignment explanation
Indices: 36013926--36013981 Score: 51
Period size: 20 Copynumber: 2.9 Consensus size: 19
36013916 ACCATTGCTT
* *
36013926 GGCCCAATTAGGCCAATAC-
1 GGCCCATTTTGGCCAA-ACG
*
36013945 GGCCCATTTTGGCCCAACG
1 GGCCCATTTTGGCCAAACG
*
36013964 TGGCCCATTATGGCCAAA
1 -GGCCCATTTTGGCCAAA
36013982 GTCCATCGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 2 0.07
19 13 0.43
20 15 0.50
ACGTcount: A:0.25, C:0.32, G:0.23, T:0.20
Consensus pattern (19 bp):
GGCCCATTTTGGCCAAACG
Found at i:36015008 original size:25 final size:24
Alignment explanation
Indices: 36014974--36015053 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 24
36014964 TCATGTACAA
36014974 GTATGCTCATACGAGCTGTGAATCG
1 GTATGCTCATACGAGCTGT-AATCG
**
36014999 GTATGCTCATTTGAGCTGTAGATCG
1 GTATGCTCATACGAGCTGTA-ATCG
* *
36015024 ATATGCTC-TCACGAGCTATAAATCG
1 GTATGCTCAT-ACGAGCTGT-AATCG
36015049 GTATG
1 GTATG
36015054 TTTTCACGAG
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
24 2 0.04
25 42 0.93
26 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (24 bp):
GTATGCTCATACGAGCTGTAATCG
Found at i:36018665 original size:6 final size:6
Alignment explanation
Indices: 36018654--36018739 Score: 59
Period size: 6 Copynumber: 14.0 Consensus size: 6
36018644 TGAAACAACC
* * * * * *
36018654 ATAAAA ATAAAA ATATAG TTCAAAA GATAAAA AT-GAA ATAAGA CTAAGAAA
1 ATAAAA ATAAAA ATAAAA AT-AAAA -ATAAAA ATAAAA ATAAAA ATAA--AA
*
36018705 ATAAAA ATAAAC ATAAAA ATAAAA AT-AAA ATAAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
36018740 CGACGGTGGA
Statistics
Matches: 60, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
5 9 0.15
6 40 0.67
7 6 0.10
8 5 0.08
ACGTcount: A:0.72, C:0.03, G:0.06, T:0.19
Consensus pattern (6 bp):
ATAAAA
Found at i:36018725 original size:18 final size:17
Alignment explanation
Indices: 36018702--36018739 Score: 67
Period size: 18 Copynumber: 2.2 Consensus size: 17
36018692 TAAGACTAAG
36018702 AAAATAAAAATAAACATA
1 AAAATAAAAATAAA-ATA
36018720 AAAATAAAAATAAAATA
1 AAAATAAAAATAAAATA
36018737 AAA
1 AAA
36018740 CGACGGTGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAATAAAAATAAAATA
Found at i:36018984 original size:21 final size:21
Alignment explanation
Indices: 36018954--36018994 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
36018944 AGAGGGCGTG
36018954 GCTTGGGTGGCTGGT-CGAGGT
1 GCTTGGGTGG-TGGTGCGAGGT
*
36018975 GCTTGTGTGGTGGTGCGAGG
1 GCTTGGGTGGTGGTGCGAGG
36018995 GCTAGAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.05, C:0.12, G:0.54, T:0.29
Consensus pattern (21 bp):
GCTTGGGTGGTGGTGCGAGGT
Found at i:36029288 original size:12 final size:12
Alignment explanation
Indices: 36029271--36029295 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36029261 CACACGTCCA
36029271 TGTGCTAGGCCG
1 TGTGCTAGGCCG
36029283 TGTGCTAGGCCG
1 TGTGCTAGGCCG
36029295 T
1 T
36029296 CTAATAGCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.24, G:0.40, T:0.28
Consensus pattern (12 bp):
TGTGCTAGGCCG
Found at i:36030914 original size:43 final size:40
Alignment explanation
Indices: 36030852--36030977 Score: 114
Period size: 43 Copynumber: 3.0 Consensus size: 40
36030842 GGATTTCGTT
36030852 ATGTGTTATCGTGTAAGACCACGTCTAGGACGTTGGCATTA
1 ATGTGTTA-CGTGTAAGACCACGTCTAGGACGTTGGCATTA
* *
36030893 ACTTGTGTTTACGTGTAAGACC-C-TATATGGGACAG-TGGCATCGTT
1 A--TGTG-TTACGTGTAAGACCACGTCTA--GGAC-GTTGGCAT--TA
*
36030938 ATGTGATTACATGTAAGACCACGTCTAGGACGTTGGCATT
1 ATGTG-TTACGTGTAAGACCACGTCTAGGACGTTGGCATT
36030978 GTACGATATG
Statistics
Matches: 69, Mismatches: 5, Indels: 22
0.72 0.05 0.23
Matches are distributed among these distances:
41 5 0.07
42 2 0.03
43 52 0.75
44 5 0.07
45 5 0.07
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (40 bp):
ATGTGTTACGTGTAAGACCACGTCTAGGACGTTGGCATTA
Found at i:36032903 original size:50 final size:50
Alignment explanation
Indices: 36032787--36033135 Score: 437
Period size: 50 Copynumber: 6.8 Consensus size: 50
36032777 GATAATAACA
* ** * *
36032787 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTTATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * * ***
36032838 TGCCCATGCCATGTCTCAAACATGGTCTTATGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
36032888 TGCCAATGCCATGTCTCAGACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
36032938 TCCCAACGCCATGTCCCAGACATGGTCTTACATGGGACATCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
** *
36032988 TAACAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
36033038 TGCCAACACCATGTCCCAGACATGGTCTTACATGACCATGGGACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTC-T---T-A-CATGGGACCTCTCATCTCGG
36033094 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
36033136 TTACCCAAAT
Statistics
Matches: 260, Mismatches: 32, Indels: 13
0.85 0.10 0.04
Matches are distributed among these distances:
50 180 0.69
51 32 0.12
52 1 0.00
54 1 0.00
55 2 0.01
56 44 0.17
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:36034659 original size:23 final size:23
Alignment explanation
Indices: 36034627--36034968 Score: 432
Period size: 23 Copynumber: 14.6 Consensus size: 23
36034617 GATTCAAGTG
* * *
36034627 AATTTAGTGTATATATGTTGTCC
1 AATTTGGTGTATAAATGCTGTCC
36034650 AATTTGGTGTATAAATGCTGTCC
1 AATTTGGTGTATAAATGCTGTCC
36034673 AATTTTGGTGTATAAATGCTGTCC
1 AA-TTTGGTGTATAAATGCTGTCC
** * * *
36034697 AATTTGGAATATATATTCTGCCC
1 AATTTGGTGTATAAATGCTGTCC
36034720 AATTTGGTGTATAAATGCTGTCC
1 AATTTGGTGTATAAATGCTGTCC
*
36034743 AATTTGGTGTATATATGCTGTCC
1 AATTTGGTGTATAAATGCTGTCC
*
36034766 AATTTTGGTGTATAAATGTTGTCC
1 AA-TTTGGTGTATAAATGCTGTCC
36034790 AATTTGGTGTATAAATGCTGTCC
1 AATTTGGTGTATAAATGCTGTCC
*
36034813 AATTTGGTGTATAAAATGTTGTCC
1 AATTTGGTGTAT-AAATGCTGTCC
* * *
36034837 AATTTTGTATATATATATGCTGTTC
1 AATTTGGTGTATA-A-ATGCTGTCC
36034862 AATTTGGTGTATAAAATGCTGTCC
1 AATTTGGTGTAT-AAATGCTGTCC
*
36034886 AATTTGGTGTATAAATGCTATCC
1 AATTTGGTGTATAAATGCTGTCC
* * *
36034909 AATTTGGTATATATATACTGTCC
1 AATTTGGTGTATAAATGCTGTCC
* *
36034932 AATTGGGTGTATAAATGCTGTTC
1 AATTTGGTGTATAAATGCTGTCC
* *
36034955 GATTTGATGTATAA
1 AATTTGGTGTATAA
36034969 GAGCTGCCCA
Statistics
Matches: 275, Mismatches: 38, Indels: 12
0.85 0.12 0.04
Matches are distributed among these distances:
23 171 0.62
24 85 0.31
25 18 0.07
26 1 0.00
ACGTcount: A:0.27, C:0.11, G:0.19, T:0.42
Consensus pattern (23 bp):
AATTTGGTGTATAAATGCTGTCC
Found at i:36034696 original size:47 final size:46
Alignment explanation
Indices: 36034627--36034968 Score: 432
Period size: 47 Copynumber: 7.3 Consensus size: 46
36034617 GATTCAAGTG
* * *
36034627 AATTTAGTGTATATATGTTGTCCAATTTGGTGTATAAATGCTGTCC
1 AATTTGGTGTATAAATGCTGTCCAATTTGGTGTATAAATGCTGTCC
** * * *
36034673 AATTTTGGTGTATAAATGCTGTCCAATTTGGAATATATATTCTGCCC
1 AA-TTTGGTGTATAAATGCTGTCCAATTTGGTGTATAAATGCTGTCC
*
36034720 AATTTGGTGTATAAATGCTGTCCAATTTGGTGTATATATGCTGTCC
1 AATTTGGTGTATAAATGCTGTCCAATTTGGTGTATAAATGCTGTCC
*
36034766 AATTTTGGTGTATAAATGTTGTCCAATTTGGTGTATAAATGCTGTCC
1 AA-TTTGGTGTATAAATGCTGTCCAATTTGGTGTATAAATGCTGTCC
* * * *
36034813 AATTTGGTGTATAAAATGTTGTCCAATTTTGTATATATATATGCTGTTC
1 AATTTGGTGTAT-AAATGCTGTCCAATTTGGTGTATA-A-ATGCTGTCC
*
36034862 AATTTGGTGTATAAAATGCTGTCCAATTTGGTGTATAAATGCTATCC
1 AATTTGGTGTAT-AAATGCTGTCCAATTTGGTGTATAAATGCTGTCC
* * * * *
36034909 AATTTGGTATATATATACTGTCCAATTGGGTGTATAAATGCTGTTC
1 AATTTGGTGTATAAATGCTGTCCAATTTGGTGTATAAATGCTGTCC
* *
36034955 GATTTGATGTATAA
1 AATTTGGTGTATAA
36034969 GAGCTGCCCA
Statistics
Matches: 259, Mismatches: 32, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
46 93 0.36
47 122 0.47
48 2 0.01
49 42 0.16
ACGTcount: A:0.27, C:0.11, G:0.19, T:0.42
Consensus pattern (46 bp):
AATTTGGTGTATAAATGCTGTCCAATTTGGTGTATAAATGCTGTCC
Found at i:36034722 original size:70 final size:70
Alignment explanation
Indices: 36034636--36034968 Score: 440
Period size: 70 Copynumber: 4.7 Consensus size: 70
36034626 GAATTTAGTG
36034636 TATATATGT-TGTCCAATTTGGTGTATAAATGCTGTCCAATTTTGGTGTATAAATGCTGTCCAA-
1 TATATAT-TCTGTCCAATTTGGTGTATAAATGCTGTCCAA-TTTGGTGTATAAATGCTGTCCAAT
36034699 TTTGGAA
64 TTTGGAA
* *
36034706 TATATATTCTGCCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGTATATATGCTGTCCAATTT
1 TATATATTCTGTCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGTATAAATGCTGTCCAATTT
**
36034771 TGGTG
66 TGGAA
* *
36034776 TATAAATGT-TGTCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGTATAAAATGTTGTCCAAT
1 TATATAT-TCTGTCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGTAT-AAATGCTGTCCAAT
*
36034840 TTTGTATA
64 TTTGGA-A
* * *
36034848 TATATATGCTGTTCAATTTGGTGTATAAAATGCTGTCCAATTTGGTGTATAAATGCTATCCAA-T
1 TATATATTCTGTCCAATTTGGTGTAT-AAATGCTGTCCAATTTGGTGTATAAATGCTGTCCAATT
*
36034912 TTGGTA
65 TTGGAA
* * * * *
36034918 TATATATACTGTCCAATTGGGTGTATAAATGCTGTTCGATTTGATGTATAA
1 TATATATTCTGTCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGTATAA
36034969 GAGCTGCCCA
Statistics
Matches: 232, Mismatches: 24, Indels: 15
0.86 0.09 0.06
Matches are distributed among these distances:
69 45 0.19
70 110 0.47
71 21 0.09
72 33 0.14
73 23 0.10
ACGTcount: A:0.27, C:0.11, G:0.19, T:0.42
Consensus pattern (70 bp):
TATATATTCTGTCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGTATAAATGCTGTCCAATTT
TGGAA
Found at i:36039803 original size:18 final size:18
Alignment explanation
Indices: 36039777--36039814 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
36039767 TGCTATAATA
36039777 ATTAATTTT-ATCGTCACC
1 ATTAATTTTAATC-TCACC
*
36039795 ATTATTTTTAATCTCACC
1 ATTAATTTTAATCTCACC
36039813 AT
1 AT
36039815 AAATAAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.29, C:0.21, G:0.03, T:0.47
Consensus pattern (18 bp):
ATTAATTTTAATCTCACC
Found at i:36051018 original size:12 final size:12
Alignment explanation
Indices: 36050993--36051025 Score: 57
Period size: 12 Copynumber: 2.7 Consensus size: 12
36050983 TATGGAACAA
36050993 ATTTAAATAAATC
1 ATTTAAA-AAATC
36051006 ATTTAAAAAATC
1 ATTTAAAAAATC
36051018 ATTTAAAA
1 ATTTAAAA
36051026 TTACATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.65
13 7 0.35
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (12 bp):
ATTTAAAAAATC
Found at i:36052346 original size:14 final size:13
Alignment explanation
Indices: 36052327--36052360 Score: 52
Period size: 12 Copynumber: 2.6 Consensus size: 13
36052317 CTAATTTGGG
36052327 TTTTAGGCTTAGTA
1 TTTTAGGC-TAGTA
36052341 TTTTAGG-TAGTA
1 TTTTAGGCTAGTA
36052353 TTTTAGGC
1 TTTTAGGC
36052361 CTGCTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 12 0.63
14 7 0.37
ACGTcount: A:0.21, C:0.06, G:0.24, T:0.50
Consensus pattern (13 bp):
TTTTAGGCTAGTA
Found at i:36053374 original size:48 final size:49
Alignment explanation
Indices: 36053281--36053374 Score: 122
Period size: 49 Copynumber: 1.9 Consensus size: 49
36053271 CTCGCCCATA
* *
36053281 TTATTTTTTTATTTTTAAAAATATTTATAATATTTTATTTAGCATTTTT
1 TTATTTTTTTATTTTTAAAAATATTTATAATATGTCATTTAGCATTTTT
*
36053330 TTATTTTTTTATTTATTGAAAAT-TTTAT-ATA-GTCATCTTAGCATT
1 TTATTTTTTTATTT-TTAAAAATATTTATAATATGTCAT-TTAGCATT
36053375 ATTTGCAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
47 3 0.08
48 11 0.28
49 19 0.47
50 7 0.17
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (49 bp):
TTATTTTTTTATTTTTAAAAATATTTATAATATGTCATTTAGCATTTTT
Found at i:36053400 original size:137 final size:126
Alignment explanation
Indices: 36053235--36053547 Score: 403
Period size: 137 Copynumber: 2.4 Consensus size: 126
36053225 TAAGCCTGTC
*
36053235 CATT-TTTACAAAAGATTAACCCAAACCCATTTTAGGCTCGCCCATATTATTTTTTTATTTTTAA
1 CATTATTTGCAAAAGATTAACCCAAACCCATTTTAGGCTCGCCCATATTATTTTTTTATTTTTAA
* * *
36053299 AAATATTTATAATATTTTATTTAGCATTTTTTTATTTTTTTATTTATTGAAAATTTTATATAGTC
66 AAATACTTATAATATTTTATTT-GCA------CA-TTTTTTA---ATTAAAAATTTTATATAGTC
*
36053364 ATCTTAG
120 ATCTTAA
* * * *
36053371 CATTATTTGCAAAAGATTAATCCAGACCCATTCTAGGCTCACCCATATTATTTTTTTATTTTTAA
1 CATTATTTGCAAAAGATTAACCCAAACCCATTTTAGGCTCGCCCATATTATTTTTTTATTTTTAA
*
36053436 AAATACTTATAATATTTTATTTTCACATTTTTTAATTAAAAATTTTATATAGTCATCTTAA
66 AAATACTTATAATATTTTATTTGCACATTTTTTAATTAAAAATTTTATATAGTCATCTTAA
* * *
36053497 CATTATTTGCAAACGATTAACCCAAACCCACTTTAGGCTCGCCCATTTTAT
1 CATTATTTGCAAAAGATTAACCCAAACCCATTTTAGGCTCGCCCATATTAT
36053548 GCTCACACGA
Statistics
Matches: 159, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
126 69 0.43
129 7 0.04
130 1 0.01
136 6 0.04
137 76 0.48
ACGTcount: A:0.33, C:0.16, G:0.06, T:0.46
Consensus pattern (126 bp):
CATTATTTGCAAAAGATTAACCCAAACCCATTTTAGGCTCGCCCATATTATTTTTTTATTTTTAA
AAATACTTATAATATTTTATTTGCACATTTTTTAATTAAAAATTTTATATAGTCATCTTAA
Found at i:36056678 original size:11 final size:11
Alignment explanation
Indices: 36056662--36056686 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
36056652 CTTGCAGATA
36056662 CACAATATAGT
1 CACAATATAGT
36056673 CACAATATAGT
1 CACAATATAGT
36056684 CAC
1 CAC
36056687 TAGAAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.24, G:0.08, T:0.24
Consensus pattern (11 bp):
CACAATATAGT
Found at i:36074410 original size:22 final size:22
Alignment explanation
Indices: 36074376--36074423 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
36074366 ATAAATAATG
36074376 AAAATGATAAAAAAAA-TCTATA
1 AAAATGATAAAAAAAAGT-TATA
36074398 AAAATTGAT-AAAAAAAGTTATA
1 AAAA-TGATAAAAAAAAGTTATA
36074420 AAAA
1 AAAA
36074424 CTTATTAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.23
Consensus pattern (22 bp):
AAAATGATAAAAAAAAGTTATA
Found at i:36075901 original size:20 final size:21
Alignment explanation
Indices: 36075862--36075901 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
36075852 CTTCTTTTTG
36075862 ATTTTTGGCTTTTGTTATATT
1 ATTTTTGGCTTTTGTTATATT
36075883 ATTTATTGG-TTTT-TTATAT
1 ATTT-TTGGCTTTTGTTATAT
36075902 CCGATAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 8 0.44
22 4 0.22
ACGTcount: A:0.17, C:0.03, G:0.12, T:0.68
Consensus pattern (21 bp):
ATTTTTGGCTTTTGTTATATT
Found at i:36076233 original size:86 final size:85
Alignment explanation
Indices: 36076088--36076425 Score: 337
Period size: 86 Copynumber: 4.0 Consensus size: 85
36076078 TATTTGAAAA
* * * * *
36076088 TAAAAATTATATAAATTCTGTTTCGGGATTTATTTTCGCCGTTCAACAGATTTTATTCCATTTTT
1 TAAAAATTATATAAAATCTGTTTCAGGATTTATTCTCACCATTCAACAGATTTTATTCCATTTTT
*
36076153 ATTATGTTTCCAAACGAGTAT
66 ATTTTGTTTCCAAACGAG-AT
* *
36076174 TAAAAATTATATAAAATCTGTTTCAGGATTTATTCCCACCATTCAATAGATTTTATTCCATTTTT
1 TAAAAATTATATAAAATCTGTTTCAGGATTTATTCTCACCATTCAACAGATTTTATTCCA-TTTT
* *
36076239 TATTTTGTTGCCAAAACGAGAA
65 TATTTTGTTTCC-AAACGAGAT
* * * * * *
36076261 AATAAAATTAAATAAAATATGTTTCGGGATTTATTCTCACCATTTAACAGATTTTATTCGATTTT
1 TA-AAAATTATATAAAATCTGTTTCAGGATTTATTCTCACCATTCAACAGATTTTATTCCATTTT
* * **
36076326 AATTTTGTTTCTAAAATAGAAT
65 TATTTTGTTTCCAAACGAG-AT
* * * * * **
36076348 T--AAA-T-T-GAAAATCTGTTTCAGGATTTATTCTCGCCGTTTAACAAATTTTATTTTA-TTTT
1 TAAAAATTATATAAAATCTGTTTCAGGATTTATTCTCACCATTCAACAGATTTTATTCCATTTTT
*
36076407 ATTTTTTTTCCAAACGAGA
66 ATTTTGTTTCCAAACGAGA
36076426 ACACTTAATC
Statistics
Matches: 209, Mismatches: 39, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
79 1 0.00
80 17 0.08
81 41 0.20
83 1 0.00
84 3 0.01
86 58 0.28
87 30 0.14
88 58 0.28
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (85 bp):
TAAAAATTATATAAAATCTGTTTCAGGATTTATTCTCACCATTCAACAGATTTTATTCCATTTTT
ATTTTGTTTCCAAACGAGAT
Found at i:36076291 original size:88 final size:87
Alignment explanation
Indices: 36076083--36076426 Score: 328
Period size: 88 Copynumber: 4.0 Consensus size: 87
36076073 TTTTTTATTT
* * * *
36076083 GAAAATAAAAATTATATAAATTCTGTTTCGGGATTTATTTTCGCCGTTCAACAGATTTTATTCCA
1 GAAAATAAAAATTATATAAAATCTGTTTCGGGATTTATTCTCACCATTCAACAGATTTTATTCCA
* *
36076148 TTTTTATTATGTTTCCAAACGA
66 TTTTTATTTTGTTGCCAAACGA
* * * * *
36076170 G-TATTAAAAATTATATAAAATCTGTTTCAGGATTTATTCCCACCATTCAATAGATTTTATTCCA
1 GAAAATAAAAATTATATAAAATCTGTTTCGGGATTTATTCTCACCATTCAACAGATTTTATTCCA
36076234 TTTTTTATTTTGTTGCCAAAACGA
66 -TTTTTATTTTGTTGCC-AAACGA
* * * *
36076258 GAAAAT-AAAATTAAATAAAATATGTTTCGGGATTTATTCTCACCATTTAACAGATTTTATTCGA
1 GAAAATAAAAATTATATAAAATCTGTTTCGGGATTTATTCTCACCATTCAACAGATTTTATTCCA
* * *
36076322 TTTTAATTTTGTTTCTAAA--A
66 TTTTTATTTTGTTGCCAAACGA
* * * * * * * * * **
36076342 TAGAAT-TAAA-T-T-GAAAATCTGTTTCAGGATTTATTCTCGCCGTTTAACAAATTTTATTTTA
1 GAAAATAAAAATTATATAAAATCTGTTTCGGGATTTATTCTCACCATTCAACAGATTTTATTCCA
* *
36076403 -TTTTATTTTTTTTCCAAACGA
66 TTTTTATTTTGTTGCCAAACGA
36076424 GAA
1 GAA
36076427 CACTTAATCA
Statistics
Matches: 212, Mismatches: 40, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
80 15 0.07
81 41 0.19
82 2 0.01
83 1 0.00
84 8 0.04
86 57 0.27
87 28 0.13
88 58 0.27
89 2 0.01
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (87 bp):
GAAAATAAAAATTATATAAAATCTGTTTCGGGATTTATTCTCACCATTCAACAGATTTTATTCCA
TTTTTATTTTGTTGCCAAACGA
Found at i:36076365 original size:81 final size:78
Alignment explanation
Indices: 36076259--36076416 Score: 208
Period size: 81 Copynumber: 2.0 Consensus size: 78
36076249 CCAAAACGAG
* *
36076259 AAAATAAAATTAAATAAAATATGTTTCGGGATTTATTCTCACCATTTAACAGATTTTATTCGATT
1 AAAATAAAATTAAATAAAATATGTTTCAGGATTTATTCTCACCATTTAACAAATTTTATTCGATT
36076324 TTAATTTTGTTTCT
66 TT-ATTTTGTTTCT
* * * * **
36076338 AAAATAGAATTAAATTGAAAATCTGTTTCAGGATTTATTCTCGCCGTTTAACAAATTTTATTTTA
1 AAAATAAAATTAAA-T-AAAATATGTTTCAGGATTTATTCTCACCATTTAACAAATTTTATTCGA
*
36076403 TTTTATTTTTTTTC
64 TTTTATTTTGTTTC
36076417 CAAACGAGAA
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
79 13 0.19
80 10 0.15
81 45 0.66
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.47
Consensus pattern (78 bp):
AAAATAAAATTAAATAAAATATGTTTCAGGATTTATTCTCACCATTTAACAAATTTTATTCGATT
TTATTTTGTTTCT
Found at i:36091407 original size:41 final size:40
Alignment explanation
Indices: 36091362--36091488 Score: 114
Period size: 41 Copynumber: 3.2 Consensus size: 40
36091352 CTGCCAAGCT
*
36091362 CAAAGCCTGATATAACACACCGGCACAAAGCCTACTAGGCA
1 CAAAGCCTGATATAA-ACACCGGCACAAAGCCTGCTAGGCA
* * * ** *
36091403 CAAAGCTTGATATAATACATCGGTATGAAGCTTGCTAGGCA
1 CAAAGCCTGATATAA-ACACCGGCACAAAGCCTGCTAGGCA
* * * *
36091444 CAGAGCCCGA-AT-ATCACCGGCACAGAGCCTGCTAGGCA
1 CAAAGCCTGATATAAACACCGGCACAAAGCCTGCTAGGCA
*
36091482 CAGAGCC
1 CAAAGCC
36091489 CAAATAACGT
Statistics
Matches: 68, Mismatches: 18, Indels: 3
0.76 0.20 0.03
Matches are distributed among these distances:
38 25 0.37
39 1 0.01
40 2 0.03
41 40 0.59
ACGTcount: A:0.34, C:0.28, G:0.22, T:0.16
Consensus pattern (40 bp):
CAAAGCCTGATATAAACACCGGCACAAAGCCTGCTAGGCA
Found at i:36100153 original size:30 final size:30
Alignment explanation
Indices: 36100117--36100178 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
36100107 TAGTATTATC
* *
36100117 TTGATTTTATTTGATTCTAATCCATTTGAT
1 TTGATTTTATTTGATTCTAATCAAATTGAT
* *
36100147 TTGATTTTATTTTATTTTAATCAAATTGAT
1 TTGATTTTATTTGATTCTAATCAAATTGAT
36100177 TT
1 TT
36100179 AATTGCCCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.26, C:0.06, G:0.08, T:0.60
Consensus pattern (30 bp):
TTGATTTTATTTGATTCTAATCAAATTGAT
Found at i:36107452 original size:21 final size:21
Alignment explanation
Indices: 36107426--36107466 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
36107416 ATCTGCTCAA
* *
36107426 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
36107447 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
36107467 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:36111465 original size:20 final size:19
Alignment explanation
Indices: 36111435--36111490 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
36111425 AATTTTGGGT
36111435 TTTATTAATTTTTTTCATATG
1 TTTA-TAATTTTTTT-ATATG
*
36111456 TTTATAATTTCTTTTATATT
1 TTTATAATTT-TTTTATATG
*
36111476 TTTATAATATTTTTA
1 TTTATAATTTTTTTA
36111491 GTTTTAATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.16
20 19 0.59
21 8 0.25
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTATAATTTTTTTATATG
Found at i:36115548 original size:2 final size:2
Alignment explanation
Indices: 36115541--36115567 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
36115531 CTGCCTAGCT
36115541 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
36115568 CATTTGAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:36116488 original size:19 final size:19
Alignment explanation
Indices: 36116466--36116524 Score: 57
Period size: 22 Copynumber: 3.0 Consensus size: 19
36116456 AATTTTAATG
36116466 ATTTTTTATTTTTAAAAAT
1 ATTTTTTATTTTTAAAAAT
36116485 ATTTGTTATATTTTTTAAAAA-
1 ATTT-TT-TA-TTTTTAAAAAT
** *
36116506 ATTTTAAATTTTAAAAAAT
1 ATTTTTTATTTTTAAAAAT
36116525 TAATTAAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
18 9 0.27
19 5 0.15
20 3 0.09
21 6 0.18
22 10 0.30
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
ATTTTTTATTTTTAAAAAT
Found at i:36122024 original size:50 final size:49
Alignment explanation
Indices: 36121844--36122040 Score: 141
Period size: 50 Copynumber: 4.0 Consensus size: 49
36121834 AACCATGCAA
* * * * *
36121844 ATGTATTTGGATGAG-AAAATGTCTCCT-TTCATTGAAATCGTCCATGTTG
1 ATGTATTTGAATGAGAAAAATGTCT-CTATGCATTGAAACCATCCATG-TC
* * * * *
36121893 ATGTATTTGATTGAGGAAAAATGTCT-TCATGCATTTGAAATCGTCCAAGCC
1 ATGTATTTGAATGA-GAAAAATGTCTCT-ATGCA-TTGAAACCATCCATGTC
* * ** *
36121944 ATGTATGT-AGATGAGATAAACATCTTTATGCATTGAAACCATCCATGATC
1 ATGTATTTGA-ATGAGAAAAATGTCTCTATGCATTGAAACCATCCATG-TC
* * *
36121994 ATGTATTTGAATGTGAAAAATGTCTCTATGCAATGAAACTATCCATG
1 ATGTATTTGAATGAGAAAAATGTCTCTATGCATTGAAACCATCCATG
36122041 CTTCATACTT
Statistics
Matches: 116, Mismatches: 23, Indels: 17
0.74 0.15 0.11
Matches are distributed among these distances:
49 25 0.22
50 53 0.46
51 24 0.21
52 14 0.12
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (49 bp):
ATGTATTTGAATGAGAAAAATGTCTCTATGCATTGAAACCATCCATGTC
Found at i:36126400 original size:20 final size:20
Alignment explanation
Indices: 36126377--36126415 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
36126367 GGAGTACAGA
*
36126377 CAGAGGCACCGACGTGCAAG
1 CAGAGGCACCGAAGTGCAAG
36126397 CAGAGGCACCGAAGTGCAA
1 CAGAGGCACCGAAGTGCAA
36126416 TCTCGTACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.28, G:0.33, T:0.05
Consensus pattern (20 bp):
CAGAGGCACCGAAGTGCAAG
Found at i:36137014 original size:50 final size:50
Alignment explanation
Indices: 36136940--36137122 Score: 152
Period size: 50 Copynumber: 3.5 Consensus size: 50
36136930 CTGTACTACA
* * * ** *
36136940 AATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTACAGGAGACCTCTCATATCGGTACC
* * * * *
36136990 CATGCCATGTCCCAGACATAGTCTTACGGGGGACCTCTCATCTCGGTACC
1 AATGCCATGTCCCAGACATGGTCTTACAGGAGACCTCTCATATCGGTACC
* * * **
36137040 AACGCCATGCCCCAGACATGGTCTTAC-GTGGGACCTCTCATAACCTCAATAATGCC
1 AATGCCATGTCCCAGACATGGTCTTACAG-GAGACCTCTCAT-A--TCGGT-A--CC
36137096 AATGCCATGTCCCAGACATGGTCTTAC
1 AATGCCATGTCCCAGACATGGTCTTAC
36137123 GTGGGATATG
Statistics
Matches: 106, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
49 1 0.01
50 74 0.70
53 3 0.03
54 1 0.01
56 27 0.25
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.25
Consensus pattern (50 bp):
AATGCCATGTCCCAGACATGGTCTTACAGGAGACCTCTCATATCGGTACC
Found at i:36137110 original size:56 final size:52
Alignment explanation
Indices: 36136986--36137128 Score: 173
Period size: 50 Copynumber: 2.7 Consensus size: 52
36136976 CTCATATCGG
* * * **
36136986 TGCCCATGCCATGTCCCAGACATAGTCTTACGGGGGACCTCTCATCTCGGTA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATCTCAATA
* *
36137038 --CCAACGCCATGCCCCAGACATGGTCTTACGTGGGACCTCTCATAACCTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCAT---CTCAAT-A
36137092 TGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGA
36137129 TATGGCATTT
Statistics
Matches: 76, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
50 38 0.50
53 4 0.05
54 1 0.01
56 33 0.43
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.23
Consensus pattern (52 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATCTCAATA
Found at i:36137292 original size:173 final size:173
Alignment explanation
Indices: 36137096--36137630 Score: 393
Period size: 173 Copynumber: 3.2 Consensus size: 173
36137086 CAATAATGCC
* *
36137096 AATGCCATGTCCCAGACATGGTCTTACGTGGGATATGGCATTTGTAACATAGTCTATTTACTAGC
1 AATGCCATATCCCAGACATGGTCTTACATGGGATATGGCATTTGTAACATAGTCTATTTACTAGC
36137161 CCGTTGAACCACTTGGAATACTAAAGATACTCGGGTCTCCTATCTGATAATAACATGCCAAAGCC
66 CCGTTGAACCACTTGGAATACTAAAGATACTCGGGTCTCCTATCTGATAATAACATGCCAAAGCC
36137226 ATGTCCCGGACATGGTCTTATATAGGATGTTTCCTGTACTACA
131 ATGTCCCGGACATGGTCTTATATAGGATGTTTCCTGTACTACA
* ** * ** * * *
36137269 AATGCCATATCCCAGATATGGTCTTACATGGGAGT-TCTCATATCGGTGCCCAT-G-CCATGTCC
1 AATGCCATATCCCAGACATGGTCTTACATGGGA-TATGGCAT-T-TGT-AACATAGTCTATTTAC
* * * * * * * *** * * *
36137331 CAG-AC-AT-AGCCTTACGTGGGA-CCT-CTCAT-CTC-GGT-ACC-AAC-G------CCATGCC
62 TAGCCCGTTGAACC--ACTTGGAATACTAAAGATACTCGGGTCTCCTATCTGATAATAACATGCC
** * ** * * * * ** ** * * *
36137380 CCAGACATGGT--CTTACGTGGGACCTCTCATA--A--CCT-CAATAATGCC
125 AAAGCCAT-GTCCCGGACAT-GGTCTTAT-ATAGGATGTTTCCTGTACTACA
* *
36137425 AATGCCATGTCCCAGACATGGTCTTACGTGGGATATGGCATTTGTAACATAGTCTATTTACTAGC
1 AATGCCATATCCCAGACATGGTCTTACATGGGATATGGCATTTGTAACATAGTCTATTTACTAGC
*
36137490 CCGTTGAACCACTTGGAATACTAAGGATACTCGGGTCTCCTATCTGATAATAACATGCCAAAGCC
66 CCGTTGAACCACTTGGAATACTAAAGATACTCGGGTCTCCTATCTGATAATAACATGCCAAAGCC
* *
36137555 ATGTCCCGGACATGGTCTTATATTGGATGTTTCTTGTACTACA
131 ATGTCCCGGACATGGTCTTATATAGGATGTTTCCTGTACTACA
*
36137598 AATGCCATATCCCAGATATGGTCTTACATGGGA
1 AATGCCATATCCCAGACATGGTCTTACATGGGA
36137631 GTTCTCATAT
Statistics
Matches: 242, Mismatches: 85, Indels: 70
0.61 0.21 0.18
Matches are distributed among these distances:
153 3 0.01
154 3 0.01
155 9 0.04
156 46 0.19
157 4 0.02
158 5 0.02
159 8 0.03
160 19 0.08
161 7 0.03
162 2 0.01
163 1 0.00
166 1 0.00
167 2 0.01
168 6 0.02
169 19 0.08
170 8 0.03
171 5 0.02
172 4 0.02
173 75 0.31
174 9 0.04
175 3 0.01
176 3 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (173 bp):
AATGCCATATCCCAGACATGGTCTTACATGGGATATGGCATTTGTAACATAGTCTATTTACTAGC
CCGTTGAACCACTTGGAATACTAAAGATACTCGGGTCTCCTATCTGATAATAACATGCCAAAGCC
ATGTCCCGGACATGGTCTTATATAGGATGTTTCCTGTACTACA
Found at i:36137332 original size:50 final size:50
Alignment explanation
Indices: 36137269--36137457 Score: 198
Period size: 50 Copynumber: 3.7 Consensus size: 50
36137259 CTGTACTACA
* * * ** *
36137269 AATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATATCGGTACC
* * * *
36137319 CATGCCATGTCCCAGACATAGCCTTACGTGGGACCTCTCATCTCGGTACC
1 AATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATATCGGTACC
* * **
36137369 AACGCCATGCCCCAGACATGGTCTTACGTGGGACCTCTCATAACCTCAATAATGCC
1 AATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCAT-A--TCGGT-A--CC
36137425 AATGCCATGTCCCAGACATGGTCTTACGTGGGA
1 AATGCCATGTCCCAGACATGGTCTTACGTGGGA
36137458 TATGGCATTT
Statistics
Matches: 113, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
50 76 0.67
53 3 0.03
54 1 0.01
56 33 0.29
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (50 bp):
AATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATATCGGTACC
Found at i:36137407 original size:329 final size:328
Alignment explanation
Indices: 36136809--36138345 Score: 2815
Period size: 329 Copynumber: 4.7 Consensus size: 328
36136799 TGAACTTTCA
36136809 TGTAACATAGTCTATTTACTAGCCCGTTGAACCACTTGGAATACTAAGGATACTCGGGTCTCCTA
1 TGTAACATAGTCTATTTACTAGCCCGTTGAACCACTTGGAATACTAAGGATACTCGGGTCTCCTA
36136874 TCTGATAATAACATGCCAAAGCCATGTCCCGGACATGGTCTTATATGAGATGTTTCCTGTACTAC
66 TCTGATAATAACATGCCAAAGCCATGTCCCGGACATGGTCTTATATG-GATGTTTCCTGTACTAC
*
36136939 AAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGGTGCCCATGCCATGTCCCA
130 AAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCA
36137004 GACATAGTCTTACGGGGGACCTCTCATCTCGGTACCAACGCCATGCCCCAGACATGGTCTTACGT
195 GACATAGTCTTACGGGGGACCTCTCATCTCGGTACCAACGCCATGCCCCAGACATGGTCTTACGT
36137069 GGGACCTCTCATAACCTCAATAATGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGATATGG
260 GGGACCTCTCATAACCTCAATAATGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGATATGG
36137134 CATT
325 CATT
*
36137138 TGTAACATAGTCTATTTACTAGCCCGTTGAACCACTTGGAATACTAAAGATACTCGGGTCTCCTA
1 TGTAACATAGTCTATTTACTAGCCCGTTGAACCACTTGGAATACTAAGGATACTCGGGTCTCCTA
36137203 TCTGATAATAACATGCCAAAGCCATGTCCCGGACATGGTCTTATATAGGATGTTTCCTGTACTAC
66 TCTGATAATAACATGCCAAAGCCATGTCCCGGACATGGTCTTATAT-GGATGTTTCCTGTACTAC
36137268 AAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCA
130 AAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCA
* *
36137333 GACATAGCCTTACGTGGGACCTCTCATCTCGGTACCAACGCCATGCCCCAGACATGGTCTTACGT
195 GACATAGTCTTACGGGGGACCTCTCATCTCGGTACCAACGCCATGCCCCAGACATGGTCTTACGT
36137398 GGGACCTCTCATAACCTCAATAATGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGATATGG
260 GGGACCTCTCATAACCTCAATAATGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGATATGG
36137463 CATT
325 CATT
36137467 TGTAACATAGTCTATTTACTAGCCCGTTGAACCACTTGGAATACTAAGGATACTCGGGTCTCCTA
1 TGTAACATAGTCTATTTACTAGCCCGTTGAACCACTTGGAATACTAAGGATACTCGGGTCTCCTA
*
36137532 TCTGATAATAACATGCCAAAGCCATGTCCCGGACATGGTCTTATATTGGATGTTTCTTGTACTAC
66 TCTGATAATAACATGCCAAAGCCATGTCCCGGACATGGTCTTATA-TGGATGTTTCCTGTACTAC
*
36137597 AAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTACCCATGCCATGTCCCA
130 AAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCA
36137662 GACATAGTCTTACGGGGGACCTCTCATCTCGGTACCAACGCCATGCCCCAGACATGGTCTTACGT
195 GACATAGTCTTACGGGGGACCTCTCATCTCGGTACCAACGCCATGCCCCAGACATGGTCTTACGT
* * *
36137727 GGGACCTCTCATAACCTCAATGATGCCAATGCCATGTCCCAAACATGGTCTTACGTGGGATATGA
260 GGGACCTCTCATAACCTCAATAATGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGATATGG
36137792 CATT
325 CATT
36137796 TGTAACATAGTCTATTTACTAGCCCGTTGAACCACTTGGAATACTAAGGATACTCGGGTCTCCTA
1 TGTAACATAGTCTATTTACTAGCCCGTTGAACCACTTGGAATACTAAGGATACTCGGGTCTCCTA
36137861 TCTGATAATAACATGCCAAAGCCATGTCCCGGACATGGTCTTATATGAGATGTTTCCTGTACTAC
66 TCTGATAATAACATGCCAAAGCCATGTCCCGGACATGGTCTTATATG-GATGTTTCCTGTACTAC
36137926 AAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCA
130 AAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCA
* *
36137991 GACATAGCCTTATGGGGGACCTCTCATCTCGGTACCAACGCCATGCCCCAGACATGGTCTTACGT
195 GACATAGTCTTACGGGGGACCTCTCATCTCGGTACCAACGCCATGCCCCAGACATGGTCTTACGT
*
36138056 GGGGCCTCTCATAACCTCAATAATGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGATATGG
260 GGGACCTCTCATAACCTCAATAATGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGATATGG
36138121 CATT
325 CATT
*
36138125 TGTGACATAGTCTATTTACTAGCCCGTTGAACCACTTGGAATACTAAGGATACTCGGGTCTCCTA
1 TGTAACATAGTCTATTTACTAGCCCGTTGAACCACTTGGAATACTAAGGATACTCGGGTCTCCTA
*
36138190 TCTGATAATAACATGCCAAAGCCATGTCCCAGACATGGTCTTATATGGGATGTTTCCTGTACTAC
66 TCTGATAATAACATGCCAAAGCCATGTCCCGGACATGGTCTTATAT-GGATGTTTCCTGTACTAC
* * * ** *
36138255 AAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATCTCGGTACCAACACCATGCCCCA
130 AAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCA
* * *
36138320 AACATGGTC-TACGTGGGACCTCTCAT
195 GACATAGTCTTACGGGGGACCTCTCAT
36138346 AACCTCAATA
Statistics
Matches: 1171, Mismatches: 33, Indels: 9
0.97 0.03 0.01
Matches are distributed among these distances:
328 17 0.01
329 1151 0.98
330 3 0.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (328 bp):
TGTAACATAGTCTATTTACTAGCCCGTTGAACCACTTGGAATACTAAGGATACTCGGGTCTCCTA
TCTGATAATAACATGCCAAAGCCATGTCCCGGACATGGTCTTATATGGATGTTTCCTGTACTACA
AATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCAG
ACATAGTCTTACGGGGGACCTCTCATCTCGGTACCAACGCCATGCCCCAGACATGGTCTTACGTG
GGACCTCTCATAACCTCAATAATGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGATATGGC
ATT
Done.